Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold478
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: 151743
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Found at i:1738 original size:30 final size:30
Alignment explanation
Indices: 1702--1781 Score: 117
Period size: 30 Copynumber: 2.7 Consensus size: 30
1692 GAGGAGGGAT
**
1702 GATAGGAGGAGAGACAGGAGAGATAGTAGA
1 GATAGGAGGAGAGACAGGAGAGATAACAGA
1732 GATAGGAGGAGAGACAGGAGAGATAACAGA
1 GATAGGAGGAGAGACAGGAGAGATAACAGA
*
1762 GAAAGGAGG-GATGACAGGAG
1 GATAGGAGGAGA-GACAGGAG
1782 GAGGAGAGAA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
29 2 0.04
30 44 0.96
ACGTcount: A:0.44, C:0.05, G:0.44, T:0.07
Consensus pattern (30 bp):
GATAGGAGGAGAGACAGGAGAGATAACAGA
Found at i:1741 original size:21 final size:21
Alignment explanation
Indices: 1717--1756 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1707 GAGGAGAGAC
* *
1717 AGGAGAGATAGTAGAGATAGG
1 AGGAGAGACAGGAGAGATAGG
1738 AGGAGAGACAGGAGAGATA
1 AGGAGAGACAGGAGAGATA
1757 ACAGAGAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.03, G:0.42, T:0.10
Consensus pattern (21 bp):
AGGAGAGACAGGAGAGATAGG
Found at i:7785 original size:474 final size:475
Alignment explanation
Indices: 6757--11410 Score: 6391
Period size: 474 Copynumber: 9.8 Consensus size: 475
6747 GGTTGTCTTC
* *
6757 AGTGCCTAATCACGAAATGAATGAAGATCATTACTAGAATCCAAGTTTGTCTCATTTGAGGCATG
1 AGTGCCTAATCACAAAATGAATGAAGATCATTACTAGAATCCAAGTTTGTCTCATTTGAGGCACG
* * * * * * * *
6822 AACTTAGACTTTACAAAAATCGGTAGGGAAAAAGGCTTTCGTGCAAAACTAAACCATCAATATTG
66 AACTTAGACTTTACAAAAATTGGTTGGGAAAAAGCCTTTCTTGCGAAACCAAAGCATCAATATCG
* * *
6887 TGTATCCTAACGAGAAGACTATGTTTATGGTACCTATTCCATAAACGAATGGGGATTACTATGAG
131 TGTATCCTAATGAGAAGACTATGTTTATGGTACCTAATCCATAAAAGAATGGGGATTACTATGAG
* * * *
6952 TGTTCATGTTTGCCTTATTTAAAAGGCAAACTTTGATTCTATCAAAAATGGTGGAAAAGAACA-A
196 TATTCATGTTTGTCTTATTTAAAAGGCAAACTTTGATTCTATCAAAAACGGT-GAAAAGAACAGC
* * *
7016 TTTTGCTTGTGGCACCAAAGCATCAATGTCAAGTATCCTAATGAAGGGAATATGTTTTTGGTTCC
260 TTTT-CTTGCGACACCAAAGCATCAATGTCAAGTATCCTAATGAAGGGAATGTGTTTTTGGTTCC
* *
7081 CAATCTTGAAAAGAATGGAGACTATTACGAGAATCGATACTTGTTTTTTTATAGGATGAACTTTG
324 CAATCTTGAAAAGAATGGAGACTATTACGAGAATCGATGCTTGTCTTTTTATAGGATGAACTTTG
* ** *
7146 ATTTCAAGGAAAACAGGTTAAAGAAAAGATTTTCATGCAAAAGAAAATCATCAATATCATTGATC
389 ATTTCAAGGAAAATAGGGCAAAGAAAAGATTTTCATGCAAAAGAAAATCATCAATATCATTTATC
7211 CTAATGAGGAGAATGTGCTTATT
454 CTAATGAGGAGAATGTGCTTA-T
** *
7234 A-TG-CTGCGTCACAAAATGAATGAAGATCATTACTAGAATCCAAGTTTGTCTCATTTAAGGCAC
1 AGTGCCT-AATCACAAAATGAATGAAGATCATTACTAGAATCCAAGTTTGTCTCATTTGAGGCAC
* *
7297 GAACTTAGATTTTACAAAAATTGGTTTGGAAAAAGCCTTTCTTGCGAAACCAAAGCATCAATATC
65 GAACTTAGACTTTACAAAAATTGGTTGGGAAAAAGCCTTTCTTGCGAAACCAAAGCATCAATATC
* * * * * * * *
7362 ATTTATACAAATGAGACGACTATGTTTATGGTGCCTAATCCATAAAAAAATGGGGATTACCATGA
130 GTGTATCCTAATGAGAAGACTATGTTTATGGTACCTAATCCATAAAAGAATGGGGATTACTATGA
* * *
7427 ATATTCATGTTTTTCTTATTTAAAAGGCAAACTTTGATTCTATCAAAAACGGTGGAAAACAACAG
195 GTATTCATGTTTGTCTTATTTAAAAGGCAAACTTTGATTCTATCAAAAACGGT-GAAAAGAACAG
* * * * *
7492 TTTTTTTTGCGACACCAAAGCATCAATGTCAAGTATCCTAATGAAGGGAATTTGTTTCTAGTTCC
259 CTTTTCTTGCGACACCAAAGCATCAATGTCAAGTATCCTAATGAAGGGAATGTGTTTTTGGTTCC
* * * *
7557 CAATCTTGAAAATACT-GA-ACTATTACGAGAATCGATGCTTGCCTTTTTATAGGATGAAATTTG
324 CAATCTTGAAAAGAATGGAGACTATTACGAGAATCGATGCTTGTCTTTTTATAGGATGAACTTTG
7620 ATTTCAAGGAAAAT-GGGACAAAGAAAAGATTTTCATGCAAAAGAAAATCATCAATATCATTTAT
389 ATTTCAAGGAAAATAGGG-CAAAGAAAAGATTTTCATGCAAAAGAAAATCATCAATATCATTTAT
7684 CCTAATGAGGAGAATGTGCTTAT
453 CCTAATGAGGAGAATGTGCTTAT
* ** * * * *
7707 TGTGCCGCATCACAAAATGAATGAAGATCATTGCTAGAATCCAAGTTTGTCTCATTGGAGACATG
1 AGTGCCTAATCACAAAATGAATGAAGATCATTACTAGAATCCAAGTTTGTCTCATTTGAGGCACG
* * * **
7772 AACTTATATTTTACAAAAATTGGTTGGGAAAAAAGCCTTTCTTGCAAAATTAAAGCATCAATATC
66 AACTTAGACTTTACAAAAATTGGTTGGG-AAAAAGCCTTTCTTGCGAAACCAAAGCATCAATATC
** * * *
7837 GTGTATCCTAATGAGAAGACTA-CATTATGGTACCTATTCCATAAAAGAATGCGGATTATTATGA
130 GTGTATCCTAATGAGAAGACTATGTTTATGGTACCTAATCCATAAAAGAATGGGGATTACTATGA
* *
7901 GTATTCATGTTTGCCTTATTTAAAAGGCAAACTTTGATTCTATCAAAAATGGTGGAAAAGAACAG
195 GTATTCATGTTTGTCTTATTTAAAAGGCAAACTTTGATTCTATCAAAAACGGT-GAAAAGAACAG
* * *
7966 TTTTTCTTGCGACCCCAAAGCATCAATGTCAAGTATCCTAATGAAGGGAATTTGTTTTTGGTTCC
259 CTTTTCTTGCGACACCAAAGCATCAATGTCAAGTATCCTAATGAAGGGAATGTGTTTTTGGTTCC
* * *
8031 CAATCTTGAAAAAAATGGAGACTATTACGAGAATCGATGCTTGCCTTTTTGTAGGATGAACTTTG
324 CAATCTTGAAAAGAATGGAGACTATTACGAGAATCGATGCTTGTCTTTTTATAGGATGAACTTTG
*
8096 ATTTCAAGGAAAATGGGGCAAAGAAAAGATTTTCATGCAAAAGAAAATCATCAATATCATTTATC
389 ATTTCAAGGAAAATAGGGCAAAGAAAAGATTTTCATGCAAAAGAAAATCATCAATATCATTTATC
8161 CTAATGAGGAGAATGTGCTTAT
454 CTAATGAGGAGAATGTGCTTAT
* ** *
8183 TGTGCCGCATCACAAAATGAATGAAGATCATTACTAGAATCCAAGTTTGTCTAATTTGAGGCACG
1 AGTGCCTAATCACAAAATGAATGAAGATCATTACTAGAATCCAAGTTTGTCTCATTTGAGGCACG
* ** *
8248 AACTTAGATTTTACAAAAATTGGTTGGGAAAAAGCCTTTCTTATGAAACCAAAGCATCAATATCA
66 AACTTAGACTTTACAAAAATTGGTTGGGAAAAAGCCTTTCTTGCGAAACCAAAGCATCAATATCG
* * * * **
8313 TTTATACAAATGAGAAGACTATGTTTGTGGTACCTAATCCATAAAA-AA-AAGGATTACTATGAG
131 TGTATCCTAATGAGAAGACTATGTTTATGGTACCTAATCCATAAAAGAATGGGGATTACTATGAG
* ** * * *
8376 TATTCATGTTTGTCTTATTTAAGAGATAAACTTTGACTCTATCAAAAATGGTGAAAAGAAAAGCT
196 TATTCATGTTTGTCTTATTTAAAAGGCAAACTTTGATTCTATCAAAAACGGTGAAAAGAACAGCT
* * * * *
8441 TTTCTTGCGACACCAAAGCATCAATGTCATA-AATCTTAAGGAAGGGAATGTGTTTTAGGCTCCC
261 TTTCTTGCGACACCAAAGCATCAATGTCA-AGTATCCTAATGAAGGGAATGTGTTTTTGGTTCCC
* * * ** * *
8505 AATCCTGAAAAGAAGGGAGACTACTATAAGAATCAATGCTTGTCTTATTTAAAGGATGAACTTTG
325 AATCTTGAAAAGAATGGAGACTATTACGAGAATCGATGCTTGTCTT-TTTATAGGATGAACTTTG
* * * * *
8570 ATTTTAAGTAAAATAGGGCATAGAAAAGATTTTCACGCAAAAGAAAATCATTAATATCATTTATC
389 ATTTCAAGGAAAATAGGGCAAAGAAAAGATTTTCATGCAAAAGAAAATCATCAATATCATTTATC
8635 CTAATGAGGAGAATGTGCTTAT
454 CTAATGAGGAGAATGTGCTTAT
* * * *
8657 AGCGCCTAATCATC-AATTGAAAGAAGATCATTGCTAGAATCCATA-TTTGTCTCATTTGAGGCA
1 AGTGCCTAATCA-CAAAATGAATGAAGATCATTACTAGAATCCA-AGTTTGTCTCATTTGAGGCA
** * * **
8720 TAAACTTAGACTTTACAAAAATT-GTTAGGGAAAAAGGCTTTCTTGCAAAACCAAAGCATCTCTA
64 CGAACTTAGACTTTACAAAAATTGGTT-GGGAAAAAGCCTTTCTTGCGAAACCAAAGCATCAATA
* * *
8784 TCATGTATCCTAATAAGAAGACTATGTTTACGGTACCTAATCCATAAAAGAATGGGGATTACTAT
128 TCGTGTATCCTAATGAGAAGACTATGTTTATGGTACCTAATCCATAAAAGAATGGGGATTACTAT
* * * *
8849 GAGTATTCATGTTTGTCTTATTTAAAGGGCCAACTTTGATTCTATCAAAAACAGTGAAAATAACA
193 GAGTATTCATGTTTGTCTTATTTAAAAGGCAAACTTTGATTCTATCAAAAACGGTGAAAAGAACA
* * * *
8914 GCTTTTCTTGTGACACCAAAGCATCAATGTCAAGTATCATAACGAAGGGAATATGTTTTTGGTTC
258 GCTTTTCTTGCGACACCAAAGCATCAATGTCAAGTATCCTAATGAAGGGAATGTGTTTTTGGTTC
* * *
8979 CCAATCCTGAAAAGAATGGAGATTATTACGTGAATCGATGCTTGTCTTTTTATAGGATGAACTTT
323 CCAATCTTGAAAAGAATGGAGACTATTACGAGAATCGATGCTTGTCTTTTTATAGGATGAACTTT
* * *
9044 GATTTTAAGGAAAATAGGGCAAAGAAAAGATTTCCACGCAAAA-AATAATCATCAATATCATTTA
388 GATTTCAAGGAAAATAGGGCAAAGAAAAGATTTTCATGCAAAAGAA-AATCATCAATATCATTTA
*
9108 TCCTGATGAGGAGAATGT--TTCAT
452 TCCTAATGAGGAGAATGTGCTT-AT
* * * *
9131 AGTGCTTAATCACAAAATGAAAGAAGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACA
1 AGTGCCTAATCACAAAATGAATGAAGATCATTACTAGAATCCAAGTTTGTCTCATTTGAGGCACG
* * * *
9196 AACTAAGACTTCACAAAAATTGGTAGGGAAAAAGGCTTTCTTGCGAAACCAAAGCATCAATATCG
66 AACTTAGACTTTACAAAAATTGGTTGGGAAAAAGCCTTTCTTGCGAAACCAAAGCATCAATATCG
* * *
9261 TGTATCCTATTGAGAAGACTATGTTTATGGTGCCTAATCCATAAAAGAATTGGGATTACTATGAG
131 TGTATCCTAATGAGAAGACTATGTTTATGGTACCTAATCCATAAAAGAATGGGGATTACTATGAG
** * * **
9326 TATTCATGTTTGTCTTATTTAAAAGGCAAACTACGATTCTATCAAAAACGGCGGAAAGAACAATT
196 TATTCATGTTTGTCTTATTTAAAAGGCAAACTTTGATTCTATCAAAAACGGTGAAAAGAACAGCT
* * *
9391 TTTCTTACGACACTAAAGCATCAATGTCAAGTATCCTAATTAAGGGAATGTG-TTTTGGTTCCCA
261 TTTCTTGCGACACCAAAGCATCAATGTCAAGTATCCTAATGAAGGGAATGTGTTTTTGGTTCCCA
* *
9455 ATCTTGAAAAGAATGGAGATTATTACGAGAATCGATGCTTGTCTTTTTTTAGGATGAACTTTGAT
326 ATCTTGAAAAGAATGGAGACTATTACGAGAATCGATGCTTGTCTTTTTATAGGATGAACTTTGAT
* * * *
9520 TTTAAGAAAAATAGGGCAAAAAAAAGATTTCCATGCAAAAGAAAATCATCAATATCATTTATCCT
391 TTCAAGGAAAATAGGGCAAAGAAAAGATTTTCATGCAAAAGAAAATCATCAATATCATTTATCCT
9585 AAT-ATGGAGAATGTGCTTAT
456 AATGA-GGAGAATGTGCTTAT
* * *
9605 AGCGCCTAATCACGAAATGAATGAAGATCATTACTAGAGTCCAAGTTTGTCTCATTTGAGGCACG
1 AGTGCCTAATCACAAAATGAATGAAGATCATTACTAGAATCCAAGTTTGTCTCATTTGAGGCACG
* * * * * * * *
9670 AGCTTAGACTTTACAAAAATCGGTAGGGAAGAAGGCTTTCATGCAAAACTAAAGCATCAATATCG
66 AACTTAGACTTTACAAAAATTGGTTGGGAAAAAGCCTTTCTTGCGAAACCAAAGCATCAATATCG
** * * *
9735 TGTATCCTAATGAGAAGACTACATTTATGGTACCTATTCCATAAAAGAATAGGGATTATTATGAG
131 TGTATCCTAATGAGAAGACTATGTTTATGGTACCTAATCCATAAAAGAATGGGGATTACTATGAG
* *
9800 TATTCATGTTTGTCTTATTTAAAAGGCAAACTTTGATTCTATCAAAAACGGTGGAAAACAACAGT
196 TATTCATGTTTGTCTTATTTAAAAGGCAAACTTTGATTCTATCAAAAACGGT-GAAAAGAACAGC
* * * *
9865 TTTTCTTGCGACACTAAAACATCAATATCAAGTATCCTAATGAAGGGAATTTGTTTTTGGTTCCC
260 TTTTCTTGCGACACCAAAGCATCAATGTCAAGTATCCTAATGAAGGGAATGTGTTTTTGGTTCCC
* *
9930 AATCTTGAAAATAAT-G-GACTATTACGAGAATCGATGCTTGCCTTTTTATAGGATGAACTTTGA
325 AATCTTGAAAAGAATGGAGACTATTACGAGAATCGATGCTTGTCTTTTTATAGGATGAACTTTGA
* *
9993 TTTCAAGGAAAATAGGGTAAAGAAAAGATTTTCATGCAAAAGAAAATCATCAATGTCATTTATCC
390 TTTCAAGGAAAATAGGGCAAAGAAAAGATTTTCATGCAAAAGAAAATCATCAATATCATTTATCC
*
10058 TAATGAGGAGAATGTGATTAT
455 TAATGAGGAGAATGTGCTTAT
* **
10079 TGTG-CTGCGTCACAAAATGAATGAAGATCATTACTAGAATCCAAGTTTGTCTCATTTGAGGCAC
1 AGTGCCT-AATCACAAAATGAATGAAGATCATTACTAGAATCCAAGTTTGTCTCATTTGAGGCAC
*
10143 GAACTTAGATTTTACAAAAATTGGTTGGGAAAAAGCCTTTCTTGCGAAACCAAAGCATCAATATC
65 GAACTTAGACTTTACAAAAATTGGTTGGGAAAAAGCCTTTCTTGCGAAACCAAAGCATCAATATC
* * * * * *
10208 ATTTATACAAATGAGAAGACTATGTTTGTGGTACCTAATCCATAAAAAAATGGGGATTACTATGA
130 GTGTATCCTAATGAGAAGACTATGTTTATGGTACCTAATCCATAAAAGAATGGGGATTACTATGA
* * * * *
10273 GTATTCATGTTTGTCTTATTTAAGAGACAAACTTGGACTT-TATCAAAAATGGTGAAAAGAAAAG
195 GTATTCATGTTTGTCTTATTTAAAAGGCAAACTTTGA-TTCTATCAAAAACGGTGAAAAGAACAG
* * *
10337 CTTTTCTTGCGACACCCAAAGCATCAATGCCAAGTATCCAAATGAAGGGAATGTGTTTTTGGTTT
259 CTTTTCTTGCGACA-CCAAAGCATCAATGTCAAGTATCCTAATGAAGGGAATGTGTTTTTGGTTC
* * * *
10402 CCAATCTCGAAAAGAATGGAGACTATTATGAGAATCGCTGCTTGTCTTACTTA-AGGGATGAACT
323 CCAATCTTGAAAAGAATGGAGACTATTACGAGAATCGATGCTTGTCTT-TTTATA-GGATGAACT
* * * * * * *
10466 TTAATTAT-ACA-GAAAATAGGGTAATGAAAATATTTCCACGGAAAAGAAAATCATCAATATCAT
386 TTGATT-TCA-AGGAAAATAGGGCAAAGAAAAGATTTTCATGCAAAAGAAAATCATCAATATCAT
* * * *
10529 TTATTCTATTGA-GAGGAATGTGTTTAC
449 TTATCCTAATGAGGA-GAATGTGCTTAT
* * * * *
10556 AGTGCATAATTACAAAATGAATGAAGATTAATACTAGAATCCAAGTTTGTCTCATTTGAGACACG
1 AGTGCCTAATCACAAAATGAATGAAGATCATTACTAGAATCCAAGTTTGTCTCATTTGAGGCACG
*
10621 AACTTAGACTTTACAAAAATCGGTTGGGAAAAAGCCTTTCTTGCGAAACCAAAGCATCAATATCG
66 AACTTAGACTTTACAAAAATTGGTTGGGAAAAAGCCTTTCTTGCGAAACCAAAGCATCAATATCG
* * * *
10686 TTTATACAAATGAGAAGACTATGTTTGTGGTACCTAATCCATAAAA-AATTGGGGATTACTATGA
131 TGTATCCTAATGAGAAGACTATGTTTATGGTACCTAATCCATAAAAGAA-TGGGGATTACTATGA
* * * * * *
10750 GTATTCATGCTTGTCTTATTTAAGAGACAAACTTTGACTCTATCAAAAATGGTGAAAAGAAAAGC
195 GTATTCATGTTTGTCTTATTTAAAAGGCAAACTTTGATTCTATCAAAAACGGTGAAAAGAACAGC
* * * *
10815 TTTTCTAGCGACCCCAAAGCATTAATGTTAA-TATCCTAATGAAGGGAATGTGTTTTTGGTTCCC
260 TTTTCTTGCGACACCAAAGCATCAATGTCAAGTATCCTAATGAAGGGAATGTGTTTTTGGTTCCC
* * * * *
10879 AATCTTGAAAAGAATTGG-GACTGTTTCGAGAATCGATGCTTGTCTTTTTAAAAGATGTACTTTG
325 AATCTTGAAAAGAA-TGGAGACTATTACGAGAATCGATGCTTGTCTTTTTATAGGATGAACTTTG
* * * ** *
10943 ATTTTACGGAAAATAGGGCAAAGAAAAGATTTCCATGTGAAAGAAAAATCGTCAATATCATTTAT
389 ATTTCAAGGAAAATAGGGCAAAGAAAAGATTTTCATGCAAAAG-AAAATCATCAATATCATTTAT
11008 CCTAATGAGGAGAATGT--TTCAT
453 CCTAATGAGGAGAATGTGCTT-AT
* *
11030 AGTGCCTAATCACAAAATGAAAGAAGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACG
1 AGTGCCTAATCACAAAATGAATGAAGATCATTACTAGAATCCAAGTTTGTCTCATTTGAGGCACG
* *
11095 AACTTAGACTTCACAAAAATTGGTTGGGAAAAAGGCTTTCTTGCGAAACCAAAGCATCAATATCG
66 AACTTAGACTTTACAAAAATTGGTTGGGAAAAAGCCTTTCTTGCGAAACCAAAGCATCAATATCG
* * *
11160 TGTATCCTAATGAGAGGACTATGTTTATGGTAGCTAATCCATAAAAGAATAGGGATTACTATGAG
131 TGTATCCTAATGAGAAGACTATGTTTATGGTACCTAATCCATAAAAGAATGGGGATTACTATGAG
11225 TATTCATGTTTGTCTTATTTAAAAGGCAAACTTTGATTCTATCAAAAACGGTGAAAAGAACAGCT
196 TATTCATGTTTGTCTTATTTAAAAGGCAAACTTTGATTCTATCAAAAACGGTGAAAAGAACAGCT
* *
11290 TTTCTTGCGACTCCAAAGCATCAATGTCAAGTATCCTAATGAAGGGAATGTGCTTTTGGTTCCCA
261 TTTCTTGCGACACCAAAGCATCAATGTCAAGTATCCTAATGAAGGGAATGTGTTTTTGGTTCCCA
* * *
11355 ATCTTTAAAAGAATGGAGATTATTATGAGAATCGATGCTTGTCTTTTTATAGGATG
326 ATCTTGAAAAGAATGGAGACTATTACGAGAATCGATGCTTGTCTTTTTATAGGATG
11411 TGTTAGGATC
Statistics
Matches: 3710, Mismatches: 414, Indels: 108
0.88 0.10 0.03
Matches are distributed among these distances:
472 1 0.00
473 284 0.08
474 1871 0.50
475 450 0.12
476 760 0.20
477 341 0.09
478 3 0.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (475 bp):
AGTGCCTAATCACAAAATGAATGAAGATCATTACTAGAATCCAAGTTTGTCTCATTTGAGGCACG
AACTTAGACTTTACAAAAATTGGTTGGGAAAAAGCCTTTCTTGCGAAACCAAAGCATCAATATCG
TGTATCCTAATGAGAAGACTATGTTTATGGTACCTAATCCATAAAAGAATGGGGATTACTATGAG
TATTCATGTTTGTCTTATTTAAAAGGCAAACTTTGATTCTATCAAAAACGGTGAAAAGAACAGCT
TTTCTTGCGACACCAAAGCATCAATGTCAAGTATCCTAATGAAGGGAATGTGTTTTTGGTTCCCA
ATCTTGAAAAGAATGGAGACTATTACGAGAATCGATGCTTGTCTTTTTATAGGATGAACTTTGAT
TTCAAGGAAAATAGGGCAAAGAAAAGATTTTCATGCAAAAGAAAATCATCAATATCATTTATCCT
AATGAGGAGAATGTGCTTAT
Found at i:8612 original size:950 final size:946
Alignment explanation
Indices: 6760--11410 Score: 6542
Period size: 950 Copynumber: 4.9 Consensus size: 946
6750 TGTCTTCAGT
*
6760 GCCTAATCACGAAATGAATGAAGATCATTACTAGAATCCAAGTTTGTCTCATTTGAGGCATGAAC
1 GCCTAATCACAAAATGAATGAAGATCATTACTAGAATCCAAGTTTGTCTCATTTGAGGCATGAAC
* * * *
6825 TTAGACTTTACAAAAATCGGTAGGGAAAAAGGCTTTCGTGCAAAACTAAACCATCAATATTGTGT
66 TTAGACTTTACAAAAATCGGTTGGGAAAAAGGCTTTCTTGCAAAACTAAAGCATCAATATCGTGT
* * *
6890 ATCCTAACGAGAAGACTATGTTTATGGTACCTATTCCATAAACGAATGGGGATTACTATGAGTGT
131 ATCCTAATGAGAAGACTATGTTTATGGTACCTATTCCATAAAAGAATGGGGATTACTATGAGTAT
* *
6955 TCATGTTTGCCTTATTTAAAAGGCAAACTTTGATTCTATCAAAAATGGTGGAAAAGAACAATTTT
196 TCATGTTTGTCTTATTTAAAAGGCAAACTTTGATTCTATCAAAAATGGTGGAAAAGAACAGTTTT
* * *
7020 GCTTGTGGCACCAAAGCATCAATGTCAAGTATCCTAATGAAGGGAATATGTTTTTGGTTCCCAAT
261 TCTTGCGACACCAAAGCATCAATGTCAAGTATCCTAATGAAGGGAATATGTTTTTGGTTCCCAAT
* * *
7085 CTTGAAAAGAATGGAGACTATTACGAGAATCGATACTTGTTTTTTTATAGGATGAACTTTGATTT
326 CTTGAAAAAAATGGAGACTATTACGAGAATCGATGCTTGTCTTTTTATAGGATGAACTTTGATTT
* ** *
7150 CAAGGAAAACAGGTTAAAGAAAAGATTTTCATGCAAAAGAAAATCATCAATATCATTGATCCTAA
391 CAAGGAAAATAGGGCAAAGAAAAGATTTTCATGCAAAAGAAAATCATCAATATCATTTATCCTAA
* *
7215 TGAGGAGAATGTGCTTATTATGCTGCGTCACAAAATGAATGAAGATCATTACTAGAATCCAAGTT
456 TGAGGAGAATGTG-TTATTGTGCTGCATCACAAAATGAATGAAGATCATTACTAGAATCCAAGTT
* *
7280 TGTCTCATTTAAGGCACGAACTTAGATTTTACAAAAATTGGTTTGGAAAAAGCCTTTCTTGCGAA
520 TGTCTCATTTGAGGCACGAACTTAGATTTTACAAAAATTGGTTGGGAAAAAGCCTTTCTTGCGAA
* *
7345 ACCAAAGCATCAATATCATTTATACAAATGAGACGACTATGTTTATGGTGCCTAATCCATAAAAA
585 ACCAAAGCATCAATATCATTTATACAAATGAGAAGACTATGTTTATGGTACCTAATCCATAAAAA
* * *
7410 AATGGGGATTACCATGAATATTCATGTTTTTCTTATTTAAAAGGCAAACTTTGATTCTATCAAAA
650 AA--GGGATTACTATGAGTATTCATGTTTGTCTTATTTAAAAGGCAAACTTTGATTCTATCAAAA
* * * *
7475 ACGGTGGAAAACAACAGTTTTTTTTGCGACACCAAAGCATCAATGTCAAGTATCCTAATGAAGGG
713 ACGGT-GAAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCAAGTATCCTAATGAAGGG
* * * * * *
7540 AATTTGTTTCTAGTTCCCAATCTTGAAAATACT-GA-ACTATTACGAGAATCGATGCTTGCCTTT
777 AATGTGTTT-TGGTTCCCAATCTTGAAAAGAATGGAGACTATTATGAGAATCGATGCTTGTCTTT
* * * *
7603 TTATAGGATGAAATTTGATTTCAAGGAAAAT-GGGACAAAGAAAAGATTTTCATGCAAAAGAAAA
841 TTATAGGATGAACTTTGATTTTAA-GAAAATAGGG-CAAAGAAAAGATTTCCACGCAAAAGAAAA
* *
7667 TCATCAATATCATTTATCCTAATGAGGAGAATGTGCTTATTGT
904 TCATCAATATCATTTATCCTAATGAGGAGAATGTGCTTATAGC
** * * *
7710 GCCGCATCACAAAATGAATGAAGATCATTGCTAGAATCCAAGTTTGTCTCATTGGAGACATGAAC
1 GCCTAATCACAAAATGAATGAAGATCATTACTAGAATCCAAGTTTGTCTCATTTGAGGCATGAAC
* * * * *
7775 TTATATTTTACAAAAATTGGTTGGGAAAAAAGCCTTTCTTGCAAAATTAAAGCATCAATATCGTG
66 TTAGACTTTACAAAAATCGGTTGGG-AAAAAGGCTTTCTTGCAAAACTAAAGCATCAATATCGTG
** * *
7840 TATCCTAATGAGAAGACTA-CATTATGGTACCTATTCCATAAAAGAATGCGGATTATTATGAGTA
130 TATCCTAATGAGAAGACTATGTTTATGGTACCTATTCCATAAAAGAATGGGGATTACTATGAGTA
*
7904 TTCATGTTTGCCTTATTTAAAAGGCAAACTTTGATTCTATCAAAAATGGTGGAAAAGAACAGTTT
195 TTCATGTTTGTCTTATTTAAAAGGCAAACTTTGATTCTATCAAAAATGGTGGAAAAGAACAGTTT
* *
7969 TTCTTGCGACCCCAAAGCATCAATGTCAAGTATCCTAATGAAGGGAATTTGTTTTTGGTTCCCAA
260 TTCTTGCGACACCAAAGCATCAATGTCAAGTATCCTAATGAAGGGAATATGTTTTTGGTTCCCAA
* *
8034 TCTTGAAAAAAATGGAGACTATTACGAGAATCGATGCTTGCCTTTTTGTAGGATGAACTTTGATT
325 TCTTGAAAAAAATGGAGACTATTACGAGAATCGATGCTTGTCTTTTTATAGGATGAACTTTGATT
*
8099 TCAAGGAAAATGGGGCAAAGAAAAGATTTTCATGCAAAAGAAAATCATCAATATCATTTATCCTA
390 TCAAGGAAAATAGGGCAAAGAAAAGATTTTCATGCAAAAGAAAATCATCAATATCATTTATCCTA
*
8164 ATGAGGAGAATGTGCTTATTGTGCCGCATCACAAAATGAATGAAGATCATTACTAGAATCCAAGT
455 ATGAGGAGAATGTG-TTATTGTGCTGCATCACAAAATGAATGAAGATCATTACTAGAATCCAAGT
* **
8229 TTGTCTAATTTGAGGCACGAACTTAGATTTTACAAAAATTGGTTGGGAAAAAGCCTTTCTTATGA
519 TTGTCTCATTTGAGGCACGAACTTAGATTTTACAAAAATTGGTTGGGAAAAAGCCTTTCTTGCGA
*
8294 AACCAAAGCATCAATATCATTTATACAAATGAGAAGACTATGTTTGTGGTACCTAATCCATAAAA
584 AACCAAAGCATCAATATCATTTATACAAATGAGAAGACTATGTTTATGGTACCTAATCCATAAAA
* * ** *
8359 AAAAGGATTACTATGAGTATTCATGTTTGTCTTATTTAAGAGATAAACTTTGACTCTATCAAAAA
649 AAAGGGATTACTATGAGTATTCATGTTTGTCTTATTTAAAAGGCAAACTTTGATTCTATCAAAAA
* * * *
8424 TGGTGAAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCATA-AATCTTAAGGAAGGGA
714 CGGTGAAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCA-AGTATCCTAATGAAGGGA
* * * * * *
8488 ATGTGTTTTAGGCTCCCAATCCTGAAAAGAAGGGAGACTACTATAAGAATCAATGCTTGTCTTAT
778 ATGTGTTTT-GGTTCCCAATCTTGAAAAGAATGGAGACTATTATGAGAATCGATGCTTGTCTT-T
* * *
8553 TTAAAGGATGAACTTTGATTTTAAGTAAAATAGGGCATAGAAAAGATTTTCACGCAAAAGAAAAT
841 TTATAGGATGAACTTTGATTTTAAG-AAAATAGGGCAAAGAAAAGATTTCCACGCAAAAGAAAAT
*
8618 CATTAATATCATTTATCCTAATGAGGAGAATGTGCTTATAGC
905 CATCAATATCATTTATCCTAATGAGGAGAATGTGCTTATAGC
* * * *
8660 GCCTAATCATC-AATTGAAAGAAGATCATTGCTAGAATCCATA-TTTGTCTCATTTGAGGCATAA
1 GCCTAATCA-CAAAATGAATGAAGATCATTACTAGAATCCA-AGTTTGTCTCATTTGAGGCATGA
* * ** *
8723 ACTTAGACTTTACAAAAAT-TGTTAGGGAAAAAGGCTTTCTTGCAAAACCAAAGCATCTCTATCA
64 ACTTAGACTTTACAAAAATCGGTT-GGGAAAAAGGCTTTCTTGCAAAACTAAAGCATCAATATCG
* * *
8787 TGTATCCTAATAAGAAGACTATGTTTACGGTACCTAATCCATAAAAGAATGGGGATTACTATGAG
128 TGTATCCTAATGAGAAGACTATGTTTATGGTACCTATTCCATAAAAGAATGGGGATTACTATGAG
* * ** * *
8852 TATTCATGTTTGTCTTATTTAAAGGGCCAACTTTGATTCTATCAAAAACAGT-GAAAATAACAGC
193 TATTCATGTTTGTCTTATTTAAAAGGCAAACTTTGATTCTATCAAAAATGGTGGAAAAGAACAGT
* * *
8916 TTTTCTTGTGACACCAAAGCATCAATGTCAAGTATCATAACGAAGGGAATATGTTTTTGGTTCCC
258 TTTTCTTGCGACACCAAAGCATCAATGTCAAGTATCCTAATGAAGGGAATATGTTTTTGGTTCCC
* * * *
8981 AATCCTGAAAAGAATGGAGATTATTACGTGAATCGATGCTTGTCTTTTTATAGGATGAACTTTGA
323 AATCTTGAAAAAAATGGAGACTATTACGAGAATCGATGCTTGTCTTTTTATAGGATGAACTTTGA
* * *
9046 TTTTAAGGAAAATAGGGCAAAGAAAAGATTTCCACGCAAAA-AATAATCATCAATATCATTTATC
388 TTTCAAGGAAAATAGGGCAAAGAAAAGATTTTCATGCAAAAGAA-AATCATCAATATCATTTATC
* * ** *
9110 CTGATGAGGAGAATGT-TTCATAGTGCTTAATCACAAAATGAAAGAAGATCATTACTAGAATCCA
452 CTAATGAGGAGAATGTGTT-ATTGTGCTGCATCACAAAATGAATGAAGATCATTACTAGAATCCA
* * * * * * *
9174 TGTTTGTCTCATTTGAGGCACAAACTAAGACTTCACAAAAATTGGTAGGGAAAAAGGCTTTCTTG
516 AGTTTGTCTCATTTGAGGCACGAACTTAGATTTTACAAAAATTGGTTGGGAAAAAGCCTTTCTTG
* * * * * *
9239 CGAAACCAAAGCATCAATATCGTGTATCCTATTGAGAAGACTATGTTTATGGTGCCTAATCCATA
581 CGAAACCAAAGCATCAATATCATTTATACAAATGAGAAGACTATGTTTATGGTACCTAATCCATA
* **
9304 AAAGAATTGGGATTACTATGAGTATTCATGTTTGTCTTATTTAAAAGGCAAACTACGATTCTATC
646 AAA-AA-AGGGATTACTATGAGTATTCATGTTTGTCTTATTTAAAAGGCAAACTTTGATTCTATC
* * * * * *
9369 AAAAACGGCGGAAAGAACAA-TTTTTCTTACGACACTAAAGCATCAATGTCAAGTATCCTAATTA
709 AAAAACGGTGAAAAGAA-AAGCTTTTCTTGCGACACCAAAGCATCAATGTCAAGTATCCTAATGA
* *
9433 AGGGAATGTGTTTTGGTTCCCAATCTTGAAAAGAATGGAGATTATTACGAGAATCGATGCTTGTC
773 AGGGAATGTGTTTTGGTTCCCAATCTTGAAAAGAATGGAGACTATTATGAGAATCGATGCTTGTC
* * *
9498 TTTTTTTAGGATGAACTTTGATTTTAAGAAAAATAGGGCAAAAAAAAGATTTCCATGCAAAAGAA
838 TTTTTATAGGATGAACTTTGATTTTAAG-AAAATAGGGCAAAGAAAAGATTTCCACGCAAAAGAA
9563 AATCATCAATATCATTTATCCTAAT-ATGGAGAATGTGCTTATAGC
902 AATCATCAATATCATTTATCCTAATGA-GGAGAATGTGCTTATAGC
* * * *
9608 GCCTAATCACGAAATGAATGAAGATCATTACTAGAGTCCAAGTTTGTCTCATTTGAGGCACGAGC
1 GCCTAATCACAAAATGAATGAAGATCATTACTAGAATCCAAGTTTGTCTCATTTGAGGCATGAAC
* * *
9673 TTAGACTTTACAAAAATCGGTAGGGAAGAAGGCTTTCATGCAAAACTAAAGCATCAATATCGTGT
66 TTAGACTTTACAAAAATCGGTTGGGAAAAAGGCTTTCTTGCAAAACTAAAGCATCAATATCGTGT
** * *
9738 ATCCTAATGAGAAGACTACATTTATGGTACCTATTCCATAAAAGAATAGGGATTATTATGAGTAT
131 ATCCTAATGAGAAGACTATGTTTATGGTACCTATTCCATAAAAGAATGGGGATTACTATGAGTAT
* *
9803 TCATGTTTGTCTTATTTAAAAGGCAAACTTTGATTCTATCAAAAACGGTGGAAAACAACAGTTTT
196 TCATGTTTGTCTTATTTAAAAGGCAAACTTTGATTCTATCAAAAATGGTGGAAAAGAACAGTTTT
* * * *
9868 TCTTGCGACACTAAAACATCAATATCAAGTATCCTAATGAAGGGAATTTGTTTTTGGTTCCCAAT
261 TCTTGCGACACCAAAGCATCAATGTCAAGTATCCTAATGAAGGGAATATGTTTTTGGTTCCCAAT
* *
9933 CTTGAAAATAAT-G-GACTATTACGAGAATCGATGCTTGCCTTTTTATAGGATGAACTTTGATTT
326 CTTGAAAAAAATGGAGACTATTACGAGAATCGATGCTTGTCTTTTTATAGGATGAACTTTGATTT
* *
9996 CAAGGAAAATAGGGTAAAGAAAAGATTTTCATGCAAAAGAAAATCATCAATGTCATTTATCCTAA
391 CAAGGAAAATAGGGCAAAGAAAAGATTTTCATGCAAAAGAAAATCATCAATATCATTTATCCTAA
*
10061 TGAGGAGAATGTGATTATTGTGCTGCGTCACAAAATGAATGAAGATCATTACTAGAATCCAAGTT
456 TGAGGAGAATGTG-TTATTGTGCTGCATCACAAAATGAATGAAGATCATTACTAGAATCCAAGTT
10126 TGTCTCATTTGAGGCACGAACTTAGATTTTACAAAAATTGGTTGGGAAAAAGCCTTTCTTGCGAA
520 TGTCTCATTTGAGGCACGAACTTAGATTTTACAAAAATTGGTTGGGAAAAAGCCTTTCTTGCGAA
*
10191 ACCAAAGCATCAATATCATTTATACAAATGAGAAGACTATGTTTGTGGTACCTAATCCATAAAAA
585 ACCAAAGCATCAATATCATTTATACAAATGAGAAGACTATGTTTATGGTACCTAATCCATAAAAA
* * *
10256 AATGGGGATTACTATGAGTATTCATGTTTGTCTTATTTAAGAGACAAACTTGGACTT-TATCAAA
650 AA--GGGATTACTATGAGTATTCATGTTTGTCTTATTTAAAAGGCAAACTTTGA-TTCTATCAAA
* * *
10320 AATGGTGAAAAGAAAAGCTTTTCTTGCGACACCCAAAGCATCAATGCCAAGTATCCAAATGAAGG
712 AACGGTGAAAAGAAAAGCTTTTCTTGCGACA-CCAAAGCATCAATGTCAAGTATCCTAATGAAGG
* * *
10385 GAATGTGTTTTTGGTTTCCAATCTCGAAAAGAATGGAGACTATTATGAGAATCGCTGCTTGTCTT
776 GAATGTG-TTTTGGTTCCCAATCTTGAAAAGAATGGAGACTATTATGAGAATCGATGCTTGTCTT
* * * * * * *
10450 ACTTA-AGGGATGAACTTTAATTATACAGAAAATAGGGTAATGAAAATATTTCCACGGAAAAGAA
840 -TTTATA-GGATGAACTTTGATTTTA-AGAAAATAGGGCAAAGAAAAGATTTCCACGCAAAAGAA
* * * * *
10514 AATCATCAATATCATTTATTCTATTGA-GAGGAATGTGTTTACAGT
902 AATCATCAATATCATTTATCCTAATGAGGA-GAATGTGCTTATAGC
* * * * * *
10559 GCATAATTACAAAATGAATGAAGATTAATACTAGAATCCAAGTTTGTCTCATTTGAGACACGAAC
1 GCCTAATCACAAAATGAATGAAGATCATTACTAGAATCCAAGTTTGTCTCATTTGAGGCATGAAC
* * * *
10624 TTAGACTTTACAAAAATCGGTTGGGAAAAAGCCTTTCTTGCGAAACCAAAGCATCAATATCGTTT
66 TTAGACTTTACAAAAATCGGTTGGGAAAAAGGCTTTCTTGCAAAACTAAAGCATCAATATCGTGT
* * * *
10689 ATACAAATGAGAAGACTATGTTTGTGGTACCTAATCCATAAAA-AATTGGGGATTACTATGAGTA
131 ATCCTAATGAGAAGACTATGTTTATGGTACCTATTCCATAAAAGAA-TGGGGATTACTATGAGTA
* * * * * *
10753 TTCATGCTTGTCTTATTTAAGAGACAAACTTTGACTCTATCAAAAATGGT-GAAAAGAAAAGCTT
195 TTCATGTTTGTCTTATTTAAAAGGCAAACTTTGATTCTATCAAAAATGGTGGAAAAGAACAGTTT
* * * * *
10817 TTCTAGCGACCCCAAAGCATTAATGTTAA-TATCCTAATGAAGGGAATGTGTTTTTGGTTCCCAA
260 TTCTTGCGACACCAAAGCATCAATGTCAAGTATCCTAATGAAGGGAATATGTTTTTGGTTCCCAA
* * * * * *
10881 TCTTGAAAAGAATTGG-GACTGTTTCGAGAATCGATGCTTGTCTTTTTAAAAGATGTACTTTGAT
325 TCTTGAAAA-AAATGGAGACTATTACGAGAATCGATGCTTGTCTTTTTATAGGATGAACTTTGAT
* * * ** *
10945 TTTACGGAAAATAGGGCAAAGAAAAGATTTCCATGTGAAAGAAAAATCGTCAATATCATTTATCC
389 TTCAAGGAAAATAGGGCAAAGAAAAGATTTTCATGCAAAAG-AAAATCATCAATATCATTTATCC
* * *
11010 TAATGAGGAGAATGT-TTCATAGTGCCT-AATCACAAAATGAAAGAAGATCATTACTAGAATCCA
453 TAATGAGGAGAATGTGTT-ATTGTG-CTGCATCACAAAATGAATGAAGATCATTACTAGAATCCA
* * * *
11073 TGTTTGTCTCATTTGAGGCACGAACTTAGACTTCACAAAAATTGGTTGGGAAAAAGGCTTTCTTG
516 AGTTTGTCTCATTTGAGGCACGAACTTAGATTTTACAAAAATTGGTTGGGAAAAAGCCTTTCTTG
* * * * * *
11138 CGAAACCAAAGCATCAATATCGTGTATCCTAATGAGAGGACTATGTTTATGGTAGCTAATCCATA
581 CGAAACCAAAGCATCAATATCATTTATACAAATGAGAAGACTATGTTTATGGTACCTAATCCATA
11203 AAAGAATAGGGATTACTATGAGTATTCATGTTTGTCTTATTTAAAAGGCAAACTTTGATTCTATC
646 AAA-AA-AGGGATTACTATGAGTATTCATGTTTGTCTTATTTAAAAGGCAAACTTTGATTCTATC
* *
11268 AAAAACGGTGAAAAGAACAGCTTTTCTTGCGACTCCAAAGCATCAATGTCAAGTATCCTAATGAA
709 AAAAACGGTGAAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCAAGTATCCTAATGAA
* *
11333 GGGAATGTGCTTTTGGTTCCCAATCTTTAAAAGAATGGAGATTATTATGAGAATCGATGCTTGTC
774 GGGAATGTG-TTTTGGTTCCCAATCTTGAAAAGAATGGAGACTATTATGAGAATCGATGCTTGTC
11398 TTTTTATAGGATG
838 TTTTTATAGGATG
11411 TGTTAGGATC
Statistics
Matches: 3284, Mismatches: 370, Indels: 95
0.88 0.10 0.03
Matches are distributed among these distances:
946 1 0.00
947 198 0.06
948 766 0.23
949 500 0.15
950 1100 0.33
951 675 0.21
952 43 0.01
953 1 0.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (946 bp):
GCCTAATCACAAAATGAATGAAGATCATTACTAGAATCCAAGTTTGTCTCATTTGAGGCATGAAC
TTAGACTTTACAAAAATCGGTTGGGAAAAAGGCTTTCTTGCAAAACTAAAGCATCAATATCGTGT
ATCCTAATGAGAAGACTATGTTTATGGTACCTATTCCATAAAAGAATGGGGATTACTATGAGTAT
TCATGTTTGTCTTATTTAAAAGGCAAACTTTGATTCTATCAAAAATGGTGGAAAAGAACAGTTTT
TCTTGCGACACCAAAGCATCAATGTCAAGTATCCTAATGAAGGGAATATGTTTTTGGTTCCCAAT
CTTGAAAAAAATGGAGACTATTACGAGAATCGATGCTTGTCTTTTTATAGGATGAACTTTGATTT
CAAGGAAAATAGGGCAAAGAAAAGATTTTCATGCAAAAGAAAATCATCAATATCATTTATCCTAA
TGAGGAGAATGTGTTATTGTGCTGCATCACAAAATGAATGAAGATCATTACTAGAATCCAAGTTT
GTCTCATTTGAGGCACGAACTTAGATTTTACAAAAATTGGTTGGGAAAAAGCCTTTCTTGCGAAA
CCAAAGCATCAATATCATTTATACAAATGAGAAGACTATGTTTATGGTACCTAATCCATAAAAAA
AGGGATTACTATGAGTATTCATGTTTGTCTTATTTAAAAGGCAAACTTTGATTCTATCAAAAACG
GTGAAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCAAGTATCCTAATGAAGGGAATG
TGTTTTGGTTCCCAATCTTGAAAAGAATGGAGACTATTATGAGAATCGATGCTTGTCTTTTTATA
GGATGAACTTTGATTTTAAGAAAATAGGGCAAAGAAAAGATTTCCACGCAAAAGAAAATCATCAA
TATCATTTATCCTAATGAGGAGAATGTGCTTATAGC
Found at i:10306 original size:158 final size:157
Alignment explanation
Indices: 6821--11403 Score: 964
Period size: 158 Copynumber: 29.0 Consensus size: 157
6811 TTTGAGGCAT
* * * * * * * * *
6821 GAACTTAGACTTTACAAAAATCGGTAGGGAAAAAGGCTTTCGTGCAAAACTAAACCATCAATATT
1 GAACTTAGACTTTACAAAAATTGGTTGAGAAAAAGCCTTTCTTGCGAAACCAAAGCATCAATATC
* * * * * * *
6886 GTGTATCCTAACGAGAAGACTATGTTTATGGTACCTATTCCATAAACGAATGGGGATTACTATGA
66 ATTTATCCTAATGAGAGGAATATGTTTATGGTACCTAATCCATAAAAGAATGGGGATTACTATGA
* * * *
6951 GTGTTCATGTTTGCCTTATTTAAAAGGC
131 G-ATTCATGTTTGTCTTATTTAAGAGAC
* * * * * **
6979 AAACTTTGA-TTCTATCAAAAA-TGG-TG-GAAAAGAACAATTTTGCTTGTGGCACCAAAGCATC
1 GAACTTAGACTT-TA-CAAAAATTGGTTGAGAAAA-AGC--CTTT-CTTGCGAAACCAAAGCATC
* ** * * * * * *
7040 AATGTCAAGTATCCTAATGA-AGGGAATATGTTTTTGGTTCCCAAT-CTTGAAAAGAATGGAGAC
60 AATATCATTTATCCTAATGAGA-GGAATATGTTTATGGTACCTAATCCAT-AAAAGAATGGGGAT
* * * ** * *
7103 TATTACGAGAATCGATACTTGT-TTTTTTATAG-GAT
123 TACTATGAGATTC-ATGTTTGTCTTATTTA-AGAGAC
* ** * ** * * ** *
7138 GAACTTTGA-TTT-CAAGGAAAACAGGTT-AAAGAAAAGATTTTCATGCAAAAGAAAATCATCAA
1 GAACTTAGACTTTAC-A--AAAATTGGTTGAGA-AAAAGCCTTTCTTGCGAAACCAAAGCATCAA
* * * * ** * *
7200 TATCATTGATCCTAATGAG-GAGAATGTGCTTAT--TATGCTGCGTCACA-AAATGAATGAAGAT
62 TATCATTTATCCTAATGAGAG-GAATATGTTTATGGTA-CCT-AATC-CATAAAAGAATG--G-G
* * * *
7261 CATTACTA-GA-ATCCAAGTTTGTCTCATTTAAG-GCAC
120 GATTACTATGAGATTCATGTTTGTCTTATTTAAGAG-AC
*
7297 GAACTTAGATTTTACAAAAATTGGTTTG-GAAAAAGCCTTTCTTGCGAAACCAAAGCATCAATAT
1 GAACTTAGACTTTACAAAAATTGG-TTGAGAAAAAGCCTTTCTTGCGAAACCAAAGCATCAATAT
* * * * * * *
7361 CATTTATACAAATGAGACGACTATGTTTATGGTGCCTAATCCATAAAAAAATGGGGATTACCATG
65 CATTTATCCTAATGAGAGGAATATGTTTATGGTACCTAATCCATAAAAGAATGGGGATTACTATG
* * * *
7426 AATATTCATGTTTTTCTTATTTAAAAGGC
130 -AGATTCATGTTTGTCTTATTTAAGAGAC
* * * * * ** * *
7455 AAACTTTGA-TTCTATCAAAAA-CGGTGGAAAACAACAGTTTTTTTTGCGACACCAAAGCATCAA
1 GAACTTAGACTT-TA-CAAAAATTGGTTGAGAA-AA-AGCCTTTCTTGCGAAACCAAAGCATCAA
* ** * * * * * * * * * *
7518 TGTCAAGTATCCTAATGA-AGGGAATTTGTTTCTAGTTCCCAAT-CTTGAAAATACT--GAACTA
62 TATCATTTATCCTAATGAGA-GGAATATGTTTATGGTACCTAATCCAT-AAAAGAATGGGGATTA
* * * * * *
7579 TTACGAGAATCGATGCTTGCCTT-TTTATAG-GAT
125 CTATGAGATTC-ATGTTTGTCTTATTTA-AGAGAC
* * * *** * ** * * ** *
7612 GAAATTTGA-TTT-CAAGGAAAATGGGACAAAGAAAAGATTTTCATGCAAAAGAAAATCATCAAT
1 GAACTTAGACTTTACAA--AAATTGGTTGAGA-AAAAGCCTTTCTTGCGAAACCAAAGCATCAAT
* * * * ** * ** *
7675 ATCATTTATCCTAATGAG-GAGAATGTGCTTATTGTGCCGCATCACA-AAATGAATGAAGATCA-
63 ATCATTTATCCTAATGAGAG-GAATATGTTTATGGTACCTAATC-CATAAAAGAATGGGGATTAC
* * * ** * *
7737 T-TGCTAGAATCCAAGTTTGTCTCATTGGAGACAT
126 TATG--AG-ATTCATGTTTGTCTTATTTAAGAGAC
* * * * **
7771 GAACTTATATTTTACAAAAATTGGTTGGGAAAAAAGCCTTTCTTGCAAAATTAAAGCATCAATAT
1 GAACTTAGACTTTACAAAAATTGGTTGAG-AAAAAGCCTTTCTTGCGAAACCAAAGCATCAATAT
* * * * ** * * *
7836 CGTGTATCCTAATGAGAAGACTA-CATTATGGTACCTATTCCATAAAAGAATGCGGATTATTATG
65 CATTTATCCTAATGAGAGGAATATGTTTATGGTACCTAATCCATAAAAGAATGGGGATTACTATG
* * *
7900 AGTATTCATGTTTGCCTTATTTAAAAGGC
130 AG-ATTCATGTTTGTCTTATTTAAGAGAC
* * * * ** **
7929 AAACTTTGA-TTCTATCAAAAA-TGGTGGAAAAGAACAGTTTTTCTTGCGACCCCAAAGCATCAA
1 GAACTTAGACTT-TA-CAAAAATTGGTTGAGAA-AA-AGCCTTTCTTGCGAAACCAAAGCATCAA
* ** * * * * * * * *
7992 TGTCAAGTATCCTAATGA-AGGGAATTTGTTTTTGGTTCCCAAT-CTTGAAAAAAATGGAGACTA
62 TATCATTTATCCTAATGAGA-GGAATATGTTTATGGTACCTAATCCAT-AAAAGAATGGGGATTA
* * * * * * *
8055 TTACGAGAATCGATGCTTGCCTT-TTTGTAG-GAT
125 CTATGAGATTC-ATGTTTGTCTTATTT-AAGAGAC
* * * * ** * * ** *
8088 GAACTTTGA-TTT-CAAGGAAAATGG-GGCAAAGAAAAGATTTTCATGCAAAAGAAAATCATCAA
1 GAACTTAGACTTTACAA--AAATTGGTTG-AGA-AAAAGCCTTTCTTGCGAAACCAAAGCATCAA
* * * * ** * **
8150 TATCATTTATCCTAATGAG-GAGAATGTGCTTATTGTGCCGCATCACA-AAATGAATGAAGATCA
62 TATCATTTATCCTAATGAGAG-GAATATGTTTATGGTACCTAATC-CATAAAAGAATG--G-GGA
* * * *
8213 TTACTA-GA-ATCCAAGTTTGTCTAATTTGAG-GCAC
122 TTACTATGAGATTCATGTTTGTCTTATTTAAGAG-AC
* * **
8247 GAACTTAGATTTTACAAAAATTGGTTGGGAAAAAGCCTTTCTTATGAAACCAAAGCATCAATATC
1 GAACTTAGACTTTACAAAAATTGGTTGAGAAAAAGCCTTTCTTGCGAAACCAAAGCATCAATATC
* * * * * **
8312 ATTTATACAAATGAGAAGACTATGTTTGTGGTACCTAATCCATAAAA-AA-AAGGATTACTATGA
66 ATTTATCCTAATGAGAGGAATATGTTTATGGTACCTAATCCATAAAAGAATGGGGATTACTATGA
*
8375 GTATTCATGTTTGTCTTATTTAAGAGAT
131 G-ATTCATGTTTGTCTTATTTAAGAGAC
* * * * * *
8403 AAACTTTGACTCTATCAAAAA-TGG-TGAAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAAT
1 GAACTTAGACTTTA-CAAAAATTGGTTG-AGA-AAAAGCCTTTCTTGCGAAACCAAAGCATCAAT
* ** * * * * *
8466 GTCATAAATCTTAAGGA-AGGGAATGTGTTT-TAGGCT-CCCAATCC-TGAAAAGAA-GGGAGAC
63 ATCATTTATCCTAATGAGA-GGAATATGTTTAT-GG-TACCTAATCCAT-AAAAGAATGGG-GAT
* * * *
8526 TACTATAAGAATCAATGCTTGTCTTATTTAA-AGGAT
123 TACTATGAGATTC-ATGTTTGTCTTATTTAAGA-GAC
* * * * ** ** * ** * *
8562 GAACTTTGATTTTA-AGTAAAATAGG--GCATAGAAAAGATTTTCACGCAAAAGAAAATCATTAA
1 GAACTTAGACTTTACA--AAAATTGGTTG-AGA-AAAAGCCTTTCTTGCGAAACCAAAGCATCAA
* * * ** * ***
8624 TATCATTTATCCTAATGAG-GAGAATGTGCTTATAGCGCCTAATCATCAATTGAAAGAA-GATCA
62 TATCATTTATCCTAATGAGAG-GAATATGTTTATGGTACCTAATC--C-A-TAAAAGAATGGGGA
* * * * * *
8687 TTGCTA-GA-ATCCATATTTGTCTCATTTGAG-GCAT
122 TTACTATGAGATTCATGTTTGTCTTATTTAAGAG-AC
* * * * **
8721 AAACTTAGACTTTACAAAAATT-GTTAGGGAAAAAGGCTTTCTTGCAAAACCAAAGCATCTCTAT
1 GAACTTAGACTTTACAAAAATTGGTT-GAGAAAAAGCCTTTCTTGCGAAACCAAAGCATCAATAT
* * * * *
8785 CATGTATCCTAATAAGAAGACTATGTTTACGGTACCTAATCCATAAAAGAATGGGGATTACTATG
65 CATTTATCCTAATGAGAGGAATATGTTTATGGTACCTAATCCATAAAAGAATGGGGATTACTATG
*
8850 AGTATTCATGTTTGTCTTATTTAA-AGGGC
130 AG-ATTCATGTTTGTCTTATTTAAGA-GAC
* * ** * * * *
8879 CAACTTTGA-TTCTATCAAAAA-CAG-TGAAAATAACAGCTTTTCTTGTGACACCAAAGCATCAA
1 GAACTTAGACTT-TA-CAAAAATTGGTTGAGAA-AA-AGCCTTTCTTGCGAAACCAAAGCATCAA
* ** * * * * * *
8941 TGTCAAGTATCATAACGA-AGGGAATATGTTTTTGGTTCCCAATCC-TGAAAAGAATGGAGATTA
62 TATCATTTATCCTAATGAGA-GGAATATGTTTATGGTACCTAATCCAT-AAAAGAATGGGGATTA
* * * * * *
9004 TTACGTGAATCGATGCTTGTCTT-TTTATAG-GAT
125 CTATGAGATTC-ATGTTTGTCTTATTTA-AGAGAC
* * * * * ** ** *
9037 GAACTTTGATTTTA-AGGAAAATAGG--GCAAAGAAAAG-ATTTC-CACGCAAAAAATAATCATC
1 GAACTTAGACTTTACA--AAAATTGGTTG-AGA-AAAAGCCTTTCTTGCG-AAACCA-AAGCATC
* * * * * *
9097 AATATCATTTATCCTGAT--GAGGAGA-ATGTTTCATAGTGCTTAATCACAAAATGAAAGAA-GA
60 AATATCATTTATCCTAATGAGAGGA-ATATGTTT-ATGGTACCTAATC-C---ATAAAAGAATGG
** * * *
9158 TCATTACTA-GA-ATCCATGTTTGTCTCATTTGAG-GCAC
119 GGATTACTATGAGATTCATGTTTGTCTTATTTAAGAG-AC
* * * * * *
9195 AAACTAAGACTTCACAAAAATTGGTAGGGAAAAAGGCTTTCTTGCGAAACCAAAGCATCAATATC
1 GAACTTAGACTTTACAAAAATTGGTTGAGAAAAAGCCTTTCTTGCGAAACCAAAGCATCAATATC
* * * * * * *
9260 GTGTATCCTATTGAGAAGACTATGTTTATGGTGCCTAATCCATAAAAGAATTGGGATTACTATGA
66 ATTTATCCTAATGAGAGGAATATGTTTATGGTACCTAATCCATAAAAGAATGGGGATTACTATGA
* *
9325 GTATTCATGTTTGTCTTATTTAAAAGGC
131 G-ATTCATGTTTGTCTTATTTAAGAGAC
* * ** *** * * *
9353 AAAC-TACGA-TTCTATCAAAAA-CGGCGGA-AAGAACAATTTTTCTTACGACACTAAAGCATCA
1 GAACTTA-GACTT-TA-CAAAAATTGGTTGAGAA-AA-AGCCTTTCTTGCGAAACCAAAGCATCA
* ** * * * * * *
9414 ATGTCAAGTATCCTAATTA-AGGGAATGTGTTT-TGGTTCCCAAT-CTTGAAAAGAATGGAGATT
61 ATATCATTTATCCTAATGAGA-GGAATATGTTTATGGTACCTAATCCAT-AAAAGAATGGGGATT
* * * * * * *
9476 ATTACGAGAATCGATGCTTGTCTTTTTTTAG-GAT
124 ACTATGAGATTC-ATGTTTGTCTTATTTAAGAGAC
* * * * *** * * * * ** *
9510 GAACTTTGATTTTAAGAAAAATAGGGCAAAAAAAAG-ATTTCCATGCAAAAGAAAATCATCAATA
1 GAACTTAGACTTT-ACAAAAATTGGTTGAGAAAAAGCCTTT-CTTGCGAAACCAAAGCATCAATA
* * * ** * * **
9574 TCATTTATCCTAAT-ATG-GAGAATGTGCTTATAGCGCCTAAT-CACGAAATGAATGAAGATCAT
64 TCATTTATCCTAATGA-GAG-GAATATGTTTATGGTACCTAATCCA-TAAAAGAATG--G-GGAT
* * * *
9636 TACTA-GAG-TCCAAGTTTGTCTCATTTGAG-GCAC
123 TACTATGAGATTCATGTTTGTCTTATTTAAGAG-AC
* * * * * * * * *
9669 GAGCTTAGACTTTACAAAAATCGGTAGGGAAGAAGGCTTTCATGCAAAACTAAAGCATCAATATC
1 GAACTTAGACTTTACAAAAATTGGTTGAGAAAAAGCCTTTCTTGCGAAACCAAAGCATCAATATC
* * * * ** * * *
9734 GTGTATCCTAATGAGAAGACTACATTTATGGTACCTATTCCATAAAAGAATAGGGATTATTATGA
66 ATTTATCCTAATGAGAGGAATATGTTTATGGTACCTAATCCATAAAAGAATGGGGATTACTATGA
* *
9799 GTATTCATGTTTGTCTTATTTAAAAGGC
131 G-ATTCATGTTTGTCTTATTTAAGAGAC
* * * * * ** * * *
9827 AAACTTTGA-TTCTATCAAAAA-CGGTGGAAAACAACAGTTTTTCTTGCGACACTAAAACATCAA
1 GAACTTAGACTT-TA-CAAAAATTGGTTGAGAA-AA-AGCCTTTCTTGCGAAACCAAAGCATCAA
** * * * * * * *
9890 TATCAAGTATCCTAATGA-AGGGAATTTGTTTTTGGTTCCCAAT-CTTGAAAATAAT--GGACTA
62 TATCATTTATCCTAATGAGA-GGAATATGTTTATGGTACCTAATCCAT-AAAAGAATGGGGATTA
* * * * * *
9951 TTACGAGAATCGATGCTTGCCTT-TTTATAG-GAT
125 CTATGAGATTC-ATGTTTGTCTTATTTA-AGAGAC
* * * * ** * * ** *
9984 GAACTTTGA-TTT-CAAGGAAAATAGGGT-AAAGAAAAGATTTTCATGCAAAAGAAAATCATCAA
1 GAACTTAGACTTTAC-A--AAAATTGGTTGAGA-AAAAGCCTTTCTTGCGAAACCAAAGCATCAA
* * * * * ** * **
10046 TGTCATTTATCCTAATGAG-GAGAATGTGATTATTGT-GCTGCGTCACA-AAATGAATGAAGATC
62 TATCATTTATCCTAATGAGAG-GAATATGTTTATGGTACCT-AATC-CATAAAAGAATG--G-GG
* * * *
10108 ATTACTA-GA-ATCCAAGTTTGTCTCATTTGAG-GCAC
121 ATTACTATGAGATTCATGTTTGTCTTATTTAAGAG-AC
* *
10143 GAACTTAGATTTTACAAAAATTGGTTGGGAAAAAGCCTTTCTTGCGAAACCAAAGCATCAATATC
1 GAACTTAGACTTTACAAAAATTGGTTGAGAAAAAGCCTTTCTTGCGAAACCAAAGCATCAATATC
* * * * * *
10208 ATTTATACAAATGAGAAGACTATGTTTGTGGTACCTAATCCATAAAAAAATGGGGATTACTATGA
66 ATTTATCCTAATGAGAGGAATATGTTTATGGTACCTAATCCATAAAAGAATGGGGATTACTATGA
10273 GTATTCATGTTTGTCTTATTTAAGAGAC
131 G-ATTCATGTTTGTCTTATTTAAGAGAC
* * * * *
10301 AAACTTGGACTTTATCAAAAA-TGG-TGAAAAGAAAAGCTTTTCTTGCGACACCCAAAGCATCAA
1 GAACTTAGACTTTA-CAAAAATTGGTTG-AGA-AAAAGCCTTTCTTGCGA-AACCAAAGCATCAA
** ** * * * * * * *
10364 TGCCAAGTATCCAAATGA-AGGGAATGTGTTTTTGGTTTCC-AATCTC-GAAAAGAATGGAGACT
62 TATCATTTATCCTAATGAGA-GGAATATGTTTATGG-TACCTAATC-CATAAAAGAATGGGGATT
* * * * * * *
10426 ATTATGAGAATCGCTGCTTGTCTTACTTAAGGGAT
124 ACTATGAGATTC-ATGTTTGTCTTATTTAAGAGAC
* * * ** ** *
10461 GAACTTTA-A-TTATACAGAAAATAGGGTAATGAAAATA---TTTC-CACGGAAAAGAAAATCAT
1 GAAC-TTAGACTT-TACA-AAAATTGGTTGA-GAAAA-AGCCTTTCTTGC-G-AAACCAAAGCAT
* * * ** * * * * **
10520 CAATATCATTTATTCTATTGAGAGGAATGTGTTTACAGTGCATAATTACA-AAATGAATGAAGAT
59 CAATATCATTTATCCTAATGAGAGGAATATGTTTATGGTACCTAA-TCCATAAAAGAATGGGGAT
* * * * * *
10584 TAATACT-AGAATCCAAGTTTGTCTCATTTGAGACAC
123 TACTA-TGAG-ATTCATGTTTGTCTTATTTAAGAGAC
* *
10620 GAACTTAGACTTTACAAAAATCGGTTGGGAAAAAGCCTTTCTTGCGAAACCAAAGCATCAATATC
1 GAACTTAGACTTTACAAAAATTGGTTGAGAAAAAGCCTTTCTTGCGAAACCAAAGCATCAATATC
* * * * * *
10685 GTTTATACAAATGAGAAGACTATGTTTGTGGTACCTAATCCATAAAA-AATTGGGGATTACTATG
66 ATTTATCCTAATGAGAGGAATATGTTTATGGTACCTAATCCATAAAAGAA-TGGGGATTACTATG
*
10749 AGTATTCATGCTTGTCTTATTTAAGAGAC
130 AG-ATTCATGTTTGTCTTATTTAAGAGAC
* * * * * * ** *
10778 AAACTTTGACTCTATCAAAAA-TGG-TGAAAAGAAAAGCTTTTCTAGCGACCCCAAAGCATTAAT
1 GAACTTAGACTTTA-CAAAAATTGGTTG-AGA-AAAAGCCTTTCTTGCGAAACCAAAGCATCAAT
* * * * * * * * * * *
10841 GTTA-ATATCCTAATGA-AGGGAATGTGTTTTTGGTTCCCAAT-CTTGAAAAGAATTGGGACT-G
63 ATCATTTATCCTAATGAGA-GGAATATGTTTATGGTACCTAATCCAT-AAAAGAATGGGGATTAC
* * * * *
10902 TTTCGAGAATCGATGCTTGTCTT-TTTAAAAGAT
126 TAT-GAGATTC-ATGTTTGTCTTATTTAAGAGAC
* * * * * * * * * ** * *
10935 GTACTTTGATTTTACGGAAAATAGG--GCAAAGAAAAG-ATTTCCATGTGAAAGAAAAATCGTCA
1 GAACTTAGACTTTAC-AAAAATTGGTTG-AGA-AAAAGCCTTT-CTTGCGAAA-CCAAAGCATCA
* * * **
10997 ATATCATTTATCCTAAT--GAGGAGA-ATGTTTCATAGTGCCTAATCACAAAATGAAAGAA-GAT
61 ATATCATTTATCCTAATGAGAGGA-ATATGTTT-ATGGTACCTAATC-C---ATAAAAGAATGGG
* * * *
11058 CATTACTA-GA-ATCCATGTTTGTCTCATTTGAG-GCAC
120 GATTACTATGAGATTCATGTTTGTCTTATTTAAGAG-AC
* * *
11094 GAACTTAGACTTCACAAAAATTGGTTGGGAAAAAGGCTTTCTTGCGAAACCAAAGCATCAATATC
1 GAACTTAGACTTTACAAAAATTGGTTGAGAAAAAGCCTTTCTTGCGAAACCAAAGCATCAATATC
* * * * *
11159 GTGTATCCTAATGAGAGGACTATGTTTATGGTAGCTAATCCATAAAAGAATAGGGATTACTATGA
66 ATTTATCCTAATGAGAGGAATATGTTTATGGTACCTAATCCATAAAAGAATGGGGATTACTATGA
* *
11224 GTATTCATGTTTGTCTTATTTAAAAGGC
131 G-ATTCATGTTTGTCTTATTTAAGAGAC
* * * * * **
11252 AAACTTTGA-TTCTATCAAAAA-CGG-TGAAAAGAACAGCTTTTCTTGCGACTCCAAAGCATCAA
1 GAACTTAGACTT-TA-CAAAAATTGGTTGAGAA-AA-AGCCTTTCTTGCGAAACCAAAGCATCAA
* ** * * * ** *
11314 TGTCAAGTATCCTAATGA-AGGGAATGTGCTTT-TGGTTCCCAATCTTTAAAAGAATGGAGATTA
62 TATCATTTATCCTAATGAGA-GGAATATG-TTTATGGTACCTAATCCATAAAAGAATGGGGATTA
* * *
11377 TTATGAGAATCGATGCTTGTCTT-TTTA
125 CTATGAGATTC-ATGTTTGTCTTATTTA
11404 TAGGATGTGT
Statistics
Matches: 3125, Mismatches: 980, Indels: 640
0.66 0.21 0.13
Matches are distributed among these distances:
153 7 0.00
154 29 0.01
155 47 0.02
156 198 0.06
157 372 0.12
158 1158 0.37
159 853 0.27
160 379 0.12
161 54 0.02
162 19 0.01
163 8 0.00
164 1 0.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (157 bp):
GAACTTAGACTTTACAAAAATTGGTTGAGAAAAAGCCTTTCTTGCGAAACCAAAGCATCAATATC
ATTTATCCTAATGAGAGGAATATGTTTATGGTACCTAATCCATAAAAGAATGGGGATTACTATGA
GATTCATGTTTGTCTTATTTAAGAGAC
Found at i:11733 original size:71 final size:71
Alignment explanation
Indices: 11628--11786 Score: 300
Period size: 71 Copynumber: 2.2 Consensus size: 71
11618 CATAAGTATT
*
11628 TGTATCGATACATTATGGTTGACTGAGGCTACAAAGGTCAAAACCCTTGAATGTATCGATACTCA
1 TGTATCGATACATTATGGTTGACTGAGGCAACAAAGGTCAAAACCCTTGAATGTATCGATACTCA
11693 CCCAGA
66 CCCAGA
*
11699 TGTATCGATACATTATGGTTGACTTAGGCAACAAAGGTCAAAACCCTTGAATGTATCGATACTCA
1 TGTATCGATACATTATGGTTGACTGAGGCAACAAAGGTCAAAACCCTTGAATGTATCGATACTCA
11764 CCCAGA
66 CCCAGA
11770 TGTATCGATACATTATG
1 TGTATCGATACATTATG
11787 CTTTGTATCG
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 86 1.00
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (71 bp):
TGTATCGATACATTATGGTTGACTGAGGCAACAAAGGTCAAAACCCTTGAATGTATCGATACTCA
CCCAGA
Found at i:11807 original size:13 final size:13
Alignment explanation
Indices: 11789--11815 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11779 ACATTATGCT
11789 TTGTATCGATACA
1 TTGTATCGATACA
11802 TTGTATCGATACA
1 TTGTATCGATACA
11815 T
1 T
11816 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:11922 original size:33 final size:33
Alignment explanation
Indices: 11864--11932 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
11854 CTACCACTGT
* *
11864 TTGTATCGATACATGGTACAATGTATCGATATA
1 TTGTATCGATACATGATACAATGTATCGATACA
*
11897 TTGTATCGATACATGATGA-ATTGTATCGATACA
1 TTGTATCGATACATGAT-ACAATGTATCGATACA
11930 TTG
1 TTG
11933 CTTGTAACGG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
33 31 0.97
34 1 0.03
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.38
Consensus pattern (33 bp):
TTGTATCGATACATGATACAATGTATCGATACA
Found at i:14382 original size:12 final size:11
Alignment explanation
Indices: 14360--14435 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
14350 AGAGAAAGAA
*
14360 GAGAGAGGAGG
1 GAGATAGGAGG
14371 GATGATAGGAGG
1 GA-GATAGGAGG
*
14383 AGAGACAGGA--
1 -GAGATAGGAGG
*
14393 GAGATAGTA--
1 GAGATAGGAGG
14402 GAGATAGGAGG
1 GAGATAGGAGG
14413 GATGATAGGAGG
1 GA-GATAGGAGG
*
14425 AGAGACAGGAG
1 -GAGATAGGAG
14436 AGATAATAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 4 0.08
12 30 0.57
13 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.49, T:0.09
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:14392 original size:24 final size:24
Alignment explanation
Indices: 14359--14444 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
14349 AAGAGAAAGA
*
14359 AGAGAGAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
*
14383 AGAGACAGGA--GA-GAT---AGT
1 AGAGACAGGAGGGATGATAGGAGG
*
14401 AGAGATAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
* *
14425 AGAGACAGGAGAGATAATAG
1 AGAGACAGGAGGGATGATAG
14445 AGAGAGGAGG
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 11 0.22
20 2 0.04
21 6 0.12
22 2 0.04
24 28 0.57
ACGTcount: A:0.42, C:0.02, G:0.45, T:0.10
Consensus pattern (24 bp):
AGAGACAGGAGGGATGATAGGAGG
Found at i:14411 original size:42 final size:42
Alignment explanation
Indices: 14350--14468 Score: 184
Period size: 42 Copynumber: 2.8 Consensus size: 42
14340 TAGCCCTCAA
* *
14350 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
14392 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* * *
14434 AGAGATAATAGAGAGAGGAGGGATGACAGAAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
14469 GAGAGAAGAA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.44, C:0.03, G:0.45, T:0.08
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:22890 original size:12 final size:11
Alignment explanation
Indices: 22868--22943 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
22858 AGAGAAAGAA
*
22868 GAGAGAGGAGG
1 GAGATAGGAGG
22879 GATGATAGGAGG
1 GA-GATAGGAGG
22891 AGAGATAGGA--
1 -GAGATAGGAGG
*
22901 GAGATAGTA--
1 GAGATAGGAGG
22910 GAGATAGGAGG
1 GAGATAGGAGG
*
22921 GATGATAGTAGG
1 GA-GATAGGAGG
*
22933 AGAGACAGGAG
1 -GAGATAGGAG
22944 AGATAATAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 16 0.30
11 4 0.08
12 29 0.55
13 4 0.08
ACGTcount: A:0.39, C:0.01, G:0.47, T:0.12
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:22900 original size:24 final size:23
Alignment explanation
Indices: 22867--22958 Score: 79
Period size: 24 Copynumber: 4.2 Consensus size: 23
22857 AAGAGAAAGA
*
22867 AGAGAGAGGAGGGATGATAGGAGG
1 AGAGATAGGAGGGATGATA-GAGG
*
22891 AGAGATAGGA--GA-GAT--AGT
1 AGAGATAGGAGGGATGATAGAGG
22909 AGAGATAGGAGGGATGATAGTAGG
1 AGAGATAGGAGGGATGATAG-AGG
* * *
22933 AGAGACAGGAGAGATAATAGA-G
1 AGAGATAGGAGGGATGATAGAGG
22955 AGAG
1 AGAG
22959 GAGGGATGAC
Statistics
Matches: 56, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
18 12 0.21
20 2 0.04
21 6 0.11
22 7 0.12
23 1 0.02
24 28 0.50
ACGTcount: A:0.42, C:0.01, G:0.45, T:0.12
Consensus pattern (23 bp):
AGAGATAGGAGGGATGATAGAGG
Found at i:22902 original size:9 final size:9
Alignment explanation
Indices: 22888--22948 Score: 65
Period size: 9 Copynumber: 7.1 Consensus size: 9
22878 GGATGATAGG
22888 AGGAGAGAT
1 AGGAGAGAT
22897 AGGAGAGAT
1 AGGAGAGAT
*
22906 AGTAGAGAT
1 AGGAGAGAT
*
22915 AGGAGGGAT
1 AGGAGAGAT
*
22924 --GATAG-T
1 AGGAGAGAT
*
22930 AGGAGAGAC
1 AGGAGAGAT
22939 AGGAGAGAT
1 AGGAGAGAT
22948 A
1 A
22949 ATAGAGAGAG
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
6 1 0.02
7 3 0.07
8 4 0.10
9 33 0.80
ACGTcount: A:0.43, C:0.02, G:0.43, T:0.13
Consensus pattern (9 bp):
AGGAGAGAT
Found at i:22914 original size:18 final size:18
Alignment explanation
Indices: 22891--22961 Score: 61
Period size: 18 Copynumber: 3.6 Consensus size: 18
22881 TGATAGGAGG
22891 AGAGATAGGAGAGATAGT
1 AGAGATAGGAGAGATAGT
22909 AGAGATAGGAGGGATGATAGT
1 AGAGATAGGA--GA-GATAGT
* *
22930 AGGAGAGACAGGAGAGATAAT
1 ---AGAGATAGGAGAGATAGT
*
22951 AGAGAGAGGAG
1 AGAGATAGGAG
22962 GGATGACAGG
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
18 20 0.45
20 2 0.05
21 11 0.25
22 2 0.05
24 9 0.20
ACGTcount: A:0.44, C:0.01, G:0.42, T:0.13
Consensus pattern (18 bp):
AGAGATAGGAGAGATAGT
Found at i:22919 original size:42 final size:42
Alignment explanation
Indices: 22858--22976 Score: 175
Period size: 42 Copynumber: 2.8 Consensus size: 42
22848 TAGCCCTCAA
* * *
22858 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGATAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* *
22900 AGAGATAGTAGAGATAGGAGGGATGATAGTAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* *
22942 AGAGATAATAGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
22977 GAGAGAAGAA
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 68 1.00
ACGTcount: A:0.43, C:0.02, G:0.45, T:0.10
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:28759 original size:28 final size:28
Alignment explanation
Indices: 28724--28788 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
28714 TTCTTCTTTA
* *
28724 TTGATTTCTTTTCCATTGAAATTTCTTGG
1 TTGATTTCATTTCCATTCAAATTTCTT-G
* *
28753 TT-ATTTCATTTCCTTTCATATTTCTTG
1 TTGATTTCATTTCCATTCAAATTTCTTG
28780 TTGATTTCA
1 TTGATTTCA
28789 CTTCTTTGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
27 3 0.10
28 26 0.84
29 2 0.06
ACGTcount: A:0.17, C:0.15, G:0.09, T:0.58
Consensus pattern (28 bp):
TTGATTTCATTTCCATTCAAATTTCTTG
Found at i:28803 original size:27 final size:28
Alignment explanation
Indices: 28744--28805 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 28
28734 TTCCATTGAA
*
28744 ATTTCTTGGTTATTTCATTTCCTTTCAT
1 ATTTCTTGGTTATTTCACTTCCTTTCAT
*
28772 ATTTCTT-GTTGATTTCACTT-CTTTGAT
1 ATTTCTTGGTT-ATTTCACTTCCTTTCAT
*
28799 CTTTCTT
1 ATTTCTT
28806 ATTTTTCAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
27 15 0.50
28 15 0.50
ACGTcount: A:0.13, C:0.18, G:0.08, T:0.61
Consensus pattern (28 bp):
ATTTCTTGGTTATTTCACTTCCTTTCAT
Found at i:34904 original size:42 final size:42
Alignment explanation
Indices: 34850--34959 Score: 193
Period size: 42 Copynumber: 2.6 Consensus size: 42
34840 AAGAGAAAGA
* *
34850 AGAGAGAAGAGGGATGATAGGAGGAGAGACAGGAGAGATAGT
1 AGAGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAAT
*
34892 AGAGATAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAAT
1 AGAGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAAT
34934 AGAGAGAGGAGGGATGATAGGAGGAG
1 AGAGAGAGGAGGGATGATAGGAGGAG
34960 GAGAGAAGAA
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.42, C:0.02, G:0.46, T:0.10
Consensus pattern (42 bp):
AGAGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAAT
Found at i:34943 original size:18 final size:18
Alignment explanation
Indices: 34916--34965 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
34906 TGATAGGAGG
*
34916 AGAGACAGGAGAGATAAT
1 AGAGAGAGGAGAGATAAT
* *
34934 AGAGAGAGGAGGGATGAT
1 AGAGAGAGGAGAGATAAT
34952 AG-GAGGAGGAGAGA
1 AGAGA-GAGGAGAGA
34966 AGAAGATGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 2 0.07
18 25 0.93
ACGTcount: A:0.44, C:0.02, G:0.46, T:0.08
Consensus pattern (18 bp):
AGAGAGAGGAGAGATAAT
Found at i:35580 original size:11 final size:12
Alignment explanation
Indices: 35553--35585 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
35543 TACAACTCTA
*
35553 AAGGATGGAAGG
1 AAGGAGGGAAGG
35565 AAGGAGGGAA-G
1 AAGGAGGGAAGG
35576 AAGGAGGGAA
1 AAGGAGGGAA
35586 CTTCAGCGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.45, C:0.00, G:0.52, T:0.03
Consensus pattern (12 bp):
AAGGAGGGAAGG
Found at i:40352 original size:58 final size:58
Alignment explanation
Indices: 40287--40403 Score: 191
Period size: 58 Copynumber: 2.0 Consensus size: 58
40277 GAAGAATAAA
* *
40287 GCTTGGAGCCCAATTCGCATGTCCAAGAAGAGT-GAGGCCCAATTTGCATGTATTCATG
1 GCTTGGAGCCCAATTCACATGTCCAAGAAGAGTGGA-GCCCAATTTGCATATATTCATG
*
40345 GCTTGGAGCCCAATTCACATGTCCAAGAAGAGTGGAGCCCAATTTGCATATATTTATG
1 GCTTGGAGCCCAATTCACATGTCCAAGAAGAGTGGAGCCCAATTTGCATATATTCATG
40403 G
1 G
40404 GCCTATTGTT
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
58 53 0.96
59 2 0.04
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.26
Consensus pattern (58 bp):
GCTTGGAGCCCAATTCACATGTCCAAGAAGAGTGGAGCCCAATTTGCATATATTCATG
Found at i:40380 original size:29 final size:29
Alignment explanation
Indices: 40290--40393 Score: 97
Period size: 29 Copynumber: 3.6 Consensus size: 29
40280 GAATAAAGCT
40290 TGGAGCCCAATTCGCATGTCCAAGAAGAG
1 TGGAGCCCAATTCGCATGTCCAAGAAGAG
* * * **
40319 T-GAGGCCCAATTTGCATGTATTCATG--GCT
1 TGGA-GCCCAATTCGCATG--TCCAAGAAGAG
*
40348 TGGAGCCCAATTCACATGTCCAAGAAGAG
1 TGGAGCCCAATTCGCATGTCCAAGAAGAG
*
40377 TGGAGCCCAATTTGCAT
1 TGGAGCCCAATTCGCAT
40394 ATATTTATGG
Statistics
Matches: 56, Mismatches: 13, Indels: 12
0.69 0.16 0.15
Matches are distributed among these distances:
27 4 0.07
28 2 0.04
29 44 0.79
30 2 0.04
31 4 0.07
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (29 bp):
TGGAGCCCAATTCGCATGTCCAAGAAGAG
Found at i:41048 original size:76 final size:76
Alignment explanation
Indices: 40922--41079 Score: 235
Period size: 76 Copynumber: 2.1 Consensus size: 76
40912 GTTCGCATTA
* * *
40922 ATCCCTGTGGATAATAAATAATTTTGACAAAAAAGGAGTTCAAATCTTGATAAATTTTAAAGAGC
1 ATCCCCGTGGATAACAAATAATTTTGACAAAAAAGGAGTTCAAATCTTGATAAAATTTAAAGAGC
* *
40987 GGGGTTGGAGT
66 GGAGTTAGAGT
* * *
40998 ATCCCCGTGGATAACAAATAATTTTGACAAAAGAGGAGTTCAAATCTTGATAAAATTTGAAGAGT
1 ATCCCCGTGGATAACAAATAATTTTGACAAAAAAGGAGTTCAAATCTTGATAAAATTTAAAGAGC
41063 GGAGTTAGAGT
66 GGAGTTAGAGT
*
41074 TTCCCC
1 ATCCCC
41080 TTGAAAAGTC
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
76 73 1.00
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (76 bp):
ATCCCCGTGGATAACAAATAATTTTGACAAAAAAGGAGTTCAAATCTTGATAAAATTTAAAGAGC
GGAGTTAGAGT
Found at i:41173 original size:103 final size:103
Alignment explanation
Indices: 40986--41176 Score: 319
Period size: 103 Copynumber: 1.9 Consensus size: 103
40976 TTTTAAAGAG
40986 CGGGGTTGGAGTATCCCCGTGGATAACAAATAATTTTGACAAAAGAGGAGTTCAAATCTTGATAA
1 CGGGGTTGGAGTATCCCCGTGGATAACAAATAATTTTGACAAAAGAGGAGTTCAAATCTTGATAA
**
41051 AATTTGAAGAGTGGAGTTAGAGTTTCCCCTTGAAAAGT
66 AATTTGAAGAACGGAGTTAGAGTTTCCCCTTGAAAAGT
* * *
41089 CGGGGTTGGAGTATCCCTGTGGATAACAAATAATTTTGACAAAGGGGGAGTTCAAATCTTGATAA
1 CGGGGTTGGAGTATCCCCGTGGATAACAAATAATTTTGACAAAAGAGGAGTTCAAATCTTGATAA
* *
41154 ATTTTGAAGAACGGGGTTAGAGT
66 AATTTGAAGAACGGAGTTAGAGT
41177 ATTCTTGTGG
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
103 81 1.00
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.28
Consensus pattern (103 bp):
CGGGGTTGGAGTATCCCCGTGGATAACAAATAATTTTGACAAAAGAGGAGTTCAAATCTTGATAA
AATTTGAAGAACGGAGTTAGAGTTTCCCCTTGAAAAGT
Found at i:41177 original size:76 final size:74
Alignment explanation
Indices: 41089--41237 Score: 217
Period size: 76 Copynumber: 2.0 Consensus size: 74
41079 CTTGAAAAGT
* * * * *
41089 CGGGGTTGGAGTATCCCTGTGGATAACAAATAATTTTGACAAAGGGGGAGTTCAAATCTTGATAA
1 CGGGGTTAGAGTATCCCTGTGGATAACAAATAATTTTGACAAAAGAGGAGGTCAAATCTAGA-AA
41154 ATTTTGAAGAA
65 A-TTTGAAGAA
* *
41165 CGGGGTTAGAGTATTCTTGTGGATAACAAATAATTTTGACAAAAGAGGAGGTCAAATCTAGAAAA
1 CGGGGTTAGAGTATCCCTGTGGATAACAAATAATTTTGACAAAAGAGGAGGTCAAATCTAGAAAA
41230 TTTGAAGA
66 TTTGAAGA
41238 GTGGACTTCT
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
74 8 0.12
75 3 0.05
76 55 0.83
ACGTcount: A:0.37, C:0.09, G:0.26, T:0.28
Consensus pattern (74 bp):
CGGGGTTAGAGTATCCCTGTGGATAACAAATAATTTTGACAAAAGAGGAGGTCAAATCTAGAAAA
TTTGAAGAA
Found at i:41222 original size:179 final size:177
Alignment explanation
Indices: 40922--41242 Score: 516
Period size: 179 Copynumber: 1.8 Consensus size: 177
40912 GTTCGCATTA
* *
40922 ATCCCTGTGGATAATAAATAATTTTGACAAAAAAGGAGTTCAAATCTTGATAAATTTTAAAGAGC
1 ATCCCTGTGGATAACAAATAATTTTGACAAAAAAGGAGTTCAAATCTTGATAAATTTTAAAGAAC
* * *
40987 GGGGTTGGAGTATCCCCGTGGATAACAAATAATTTTGACAAAAGAGGAGTTCAAATCTTGATAAA
66 GGGGTTAGAGTATCCCCGTGGATAACAAATAATTTTGACAAAAGAGGAGGTCAAATC-T-AGAAA
41052 ATTTGAAGAGTGGAGTTAGAGTTTCCCCTTGAAAAGTCGGGGTTGGAGT
129 ATTTGAAGAGTGGAGTTAGAGTTTCCCCTTGAAAAGTCGGGGTTGGAGT
*** *
41101 ATCCCTGTGGATAACAAATAATTTTGACAAAGGGGGAGTTCAAATCTTGATAAATTTTGAAGAAC
1 ATCCCTGTGGATAACAAATAATTTTGACAAAAAAGGAGTTCAAATCTTGATAAATTTTAAAGAAC
* **
41166 GGGGTTAGAGTATTCTTGTGGATAACAAATAATTTTGACAAAAGAGGAGGTCAAATCTAGAAAAT
66 GGGGTTAGAGTATCCCCGTGGATAACAAATAATTTTGACAAAAGAGGAGGTCAAATCTAGAAAAT
41231 TTGAAGAGTGGA
131 TTGAAGAGTGGA
41243 CTTCTTAGGT
Statistics
Matches: 130, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
177 18 0.14
178 1 0.01
179 111 0.85
ACGTcount: A:0.37, C:0.10, G:0.24, T:0.29
Consensus pattern (177 bp):
ATCCCTGTGGATAACAAATAATTTTGACAAAAAAGGAGTTCAAATCTTGATAAATTTTAAAGAAC
GGGGTTAGAGTATCCCCGTGGATAACAAATAATTTTGACAAAAGAGGAGGTCAAATCTAGAAAAT
TTGAAGAGTGGAGTTAGAGTTTCCCCTTGAAAAGTCGGGGTTGGAGT
Found at i:44554 original size:18 final size:19
Alignment explanation
Indices: 44531--44570 Score: 73
Period size: 18 Copynumber: 2.2 Consensus size: 19
44521 TTTTTTTCAA
44531 GAATACAAAAAAAAGA-AG
1 GAATACAAAAAAAAGAGAG
44549 GAATACAAAAAAAAGAGAG
1 GAATACAAAAAAAAGAGAG
44568 GAA
1 GAA
44571 ACGCCAGCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.70, C:0.05, G:0.20, T:0.05
Consensus pattern (19 bp):
GAATACAAAAAAAAGAGAG
Found at i:48476 original size:76 final size:74
Alignment explanation
Indices: 48309--48469 Score: 207
Period size: 73 Copynumber: 2.2 Consensus size: 74
48299 CAGAGGATGG
* * * *
48309 GGTTGGAGTATCCCCATGGATAACAAATAATTTTAACAAAAAAGAAGTTCAAATCTTGATAAATT
1 GGTTGAAGTATCTCCATGGATAACAAATAATTTTAAC--AAAAGAAGTTCAAATCTAGATAAATC
* *
48374 TTGAAGAGTAG
64 TTGAAGAGCAA
* * * *
48385 GGTTGGAGTATCTCCATGGATAACAAATAATTTTGAC-AAAGGAGTTCAAATCTAGATTAATCTT
1 GGTTGAAGTATCTCCATGGATAACAAATAATTTTAACAAAAGAAGTTCAAATCTAGATAAATCTT
48449 GAAGAGCAA
66 GAAGAGCAA
48458 GGTTGAAGTATC
1 GGTTGAAGTATC
48470 CTCTCCAAAG
Statistics
Matches: 76, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
73 41 0.54
76 35 0.46
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.29
Consensus pattern (74 bp):
GGTTGAAGTATCTCCATGGATAACAAATAATTTTAACAAAAGAAGTTCAAATCTAGATAAATCTT
GAAGAGCAA
Found at i:58659 original size:31 final size:31
Alignment explanation
Indices: 58608--58698 Score: 130
Period size: 31 Copynumber: 3.0 Consensus size: 31
58598 CCTTACAACA
* *
58608 CTATCTTTTGA-AGGCTAAGATAAAACCTCC
1 CTATCTTTTCACAGGCTAAGATAGAACCTCC
*
58638 CTATCTTTTCACAAGCTAAGATAGAACCTCC
1 CTATCTTTTCACAGGCTAAGATAGAACCTCC
* *
58669 CTATATTTTCGCAGGCTAAGATAGAACCTC
1 CTATCTTTTCACAGGCTAAGATAGAACCTC
58699 TCAATCACTT
Statistics
Matches: 54, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
30 10 0.19
31 44 0.81
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.30
Consensus pattern (31 bp):
CTATCTTTTCACAGGCTAAGATAGAACCTCC
Found at i:59310 original size:13 final size:13
Alignment explanation
Indices: 59292--59316 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59282 TACAAAGAAC
59292 ATGTATCGATACA
1 ATGTATCGATACA
59305 ATGTATCGATAC
1 ATGTATCGATAC
59317 CAAGCAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:59330 original size:33 final size:32
Alignment explanation
Indices: 59274--59337 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
59264 CATTTTATGG
59274 TGTATCAATACAAAGAACATGTATCGATACAA
1 TGTATCAATACAAAGAACATGTATCGATACAA
* * *
59306 TGTATCGATACCAAGCAATATGTATCGATACA
1 TGTATCAATACAAAG-AACATGTATCGATACA
59338 TCTCGGGTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (32 bp):
TGTATCAATACAAAGAACATGTATCGATACAA
Found at i:61828 original size:21 final size:20
Alignment explanation
Indices: 61802--61851 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
61792 AAACAATAAC
61802 ATTTGATGAGAATTTGAAGAA
1 ATTTGATGAGAA-TTGAAGAA
** * *
61823 ATTTGAAAAGGATTGAAGGA
1 ATTTGATGAGAATTGAAGAA
61843 ATTTGATGA
1 ATTTGATGA
61852 TTGGAATTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.42, C:0.00, G:0.26, T:0.32
Consensus pattern (20 bp):
ATTTGATGAGAATTGAAGAA
Found at i:63131 original size:22 final size:21
Alignment explanation
Indices: 63106--63159 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
63096 TTAACACATC
*
63106 ATTTTCATTTTCTAACTCACTT
1 ATTTT-ATTTTCCAACTCACTT
* *
63128 ATTTTGTTTTCCAACTCATTT
1 ATTTTATTTTCCAACTCACTT
*
63149 ACTTTATTTTC
1 ATTTTATTTTC
63160 AAGAATATTA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 22 0.81
22 5 0.19
ACGTcount: A:0.20, C:0.20, G:0.02, T:0.57
Consensus pattern (21 bp):
ATTTTATTTTCCAACTCACTT
Found at i:64780 original size:31 final size:30
Alignment explanation
Indices: 64714--64839 Score: 146
Period size: 31 Copynumber: 4.0 Consensus size: 30
64704 CCTTATAACA
*
64714 CTATCTTTTGAAGGCTAAGATAGAACCT-C
1 CTATCTTTTCAAGGCTAAGATAGAACCTCC
64743 CTATCTTTTCATAGGCTAAGATAGAACCTCC
1 CTATCTTTTCA-AGGCTAAGATAGAACCTCC
*
64774 CTATCTTTTCACAGGCTAAGATATAACCTTCCTCC
1 CTATCTTTTCA-AGGCTAAGATAGAA----CCTCC
*
64809 CTATCTTTTTCAACGGCTAAGATAAAACCTC
1 CTATC-TTTTCAA-GGCTAAGATAGAACCTC
64840 TCAATCACTT
Statistics
Matches: 85, Mismatches: 4, Indels: 13
0.83 0.04 0.13
Matches are distributed among these distances:
29 10 0.12
30 17 0.20
31 25 0.29
32 4 0.05
35 11 0.13
36 18 0.21
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (30 bp):
CTATCTTTTCAAGGCTAAGATAGAACCTCC
Found at i:65475 original size:33 final size:32
Alignment explanation
Indices: 65412--65475 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
65402 CATTTTATGG
* *
65412 TGTATCAATATAAAGAACATGTATCGATACAA
1 TGTATCAATACAAAGAACATGTATCAATACAA
* *
65444 TGTATCAATACCAAGCAATATGTATCAATACA
1 TGTATCAATACAAAG-AACATGTATCAATACA
65476 TTCAAGGGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.28
Consensus pattern (32 bp):
TGTATCAATACAAAGAACATGTATCAATACAA
Found at i:65579 original size:20 final size:21
Alignment explanation
Indices: 65554--65594 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
65544 ATTTTGAATA
65554 ATTTTA-CTCGAAAAACATTG
1 ATTTTAGCTCGAAAAACATTG
*
65574 ATTTTATGCTTGAAAAACATT
1 ATTTTA-GCTCGAAAAACATT
65595 TAAACATGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
22 12 0.67
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATTTTAGCTCGAAAAACATTG
Found at i:66349 original size:172 final size:169
Alignment explanation
Indices: 66150--66459 Score: 412
Period size: 172 Copynumber: 1.8 Consensus size: 169
66140 TCCTCTCAAA
* *
66150 GAGTAGGGGTGGAGTTTCCCCAAGGATAAAATGATACGAAGGAAAATTGGATTTTT-AATGAGC-
1 GAGTAGGGATGGAGTTTCCCCAAGGATAAAATGATACGAAAGAAAATTGGATTTTTGAA-GAGCG
* *
66213 AGGGTTAAAGTGTCCTCTT-GGAGGAGCAAGGATGGAGTTTCCCTAAGGATAAAATGAT-TCAAA
65 A-GGTTAAAGGGT-CTCTTCGGAGGAG---GGATGGAGTTTCCCCAAGGATAAAATGATAT-AAA
*
66276 GGAGAATTTGATTTTTAAAGAGCAGGGTTAGAGTGTCCCCTTGGAG
124 AGAGAATTTGATTTTTAAAGAGCAGGGTTAGAGTGTCCCCTTGGAG
* * *
66322 GAGTAGGGATGGAGTTTCCCTAAGGATAAAATGATACGAAAGAGAATTTGATTTTTGAAGAGCGA
1 GAGTAGGGATGGAGTTTCCCCAAGGATAAAATGATACGAAAGAAAATTGGATTTTTGAAGAGCGA
** * * *
66387 GGTTGGAGGGTTTCTTCGGAGTAGGGATGGAGTTTCCCCAAGGATAAATTGATATAAAAGAGAAT
66 GGTTAAAGGGTCTCTTCGGAGGAGGGATGGAGTTTCCCCAAGGATAAAATGATATAAAAGAGAAT
66452 TTGATTTT
131 TTGATTTT
66460 CGAAGAGCGG
Statistics
Matches: 121, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
169 44 0.36
170 1 0.01
171 4 0.03
172 69 0.57
173 3 0.02
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (169 bp):
GAGTAGGGATGGAGTTTCCCCAAGGATAAAATGATACGAAAGAAAATTGGATTTTTGAAGAGCGA
GGTTAAAGGGTCTCTTCGGAGGAGGGATGGAGTTTCCCCAAGGATAAAATGATATAAAAGAGAAT
TTGATTTTTAAAGAGCAGGGTTAGAGTGTCCCCTTGGAG
Found at i:66447 original size:83 final size:83
Alignment explanation
Indices: 66150--66471 Score: 355
Period size: 86 Copynumber: 3.8 Consensus size: 83
66140 TCCTCTCAAA
* * * * *
66150 GAGTAGGGGTGGAGTTTCCCCAAGGATAAAATGATACGAAGGAAAATTGGATTTTT-AATGAGCA
1 GAGTAGGGATGGAGTTTCCCCAAGGATAAAATGATACAAAAGAGAATTTGATTTTTGAA-GAGCA
*
66214 GGGTTAAAGTGTCCTCTTG
65 GGGTTAGAGTGTCCTCTTG
* * * * *
66233 GAGGAGCAAGGATGGAGTTTCCCTAAGGATAAAATGATTCAAAGGAGAATTTGATTTTTAAAGAG
1 GAGTAG---GGATGGAGTTTCCCCAAGGATAAAATGATACAAAAGAGAATTTGATTTTTGAAGAG
*
66298 CAGGGTTAGAGTGTCCCCTTGGAG
63 CAGGGTTAGAGTGTCCTCTT---G
* *
66322 GAGTAGGGATGGAGTTTCCCTAAGGATAAAATGATACGAAAGAGAATTTGATTTTTGAAGAGC-G
1 GAGTAGGGATGGAGTTTCCCCAAGGATAAAATGATACAAAAGAGAATTTGATTTTTGAAGAGCAG
* * *
66386 AGGTTGGAGGGT-TTCTTCG
66 -GGTTAGAGTGTCCTCTT-G
* * *
66405 GAGTAGGGATGGAGTTTCCCCAAGGATAAATTGATATAAAAGAGAATTTGATTTTCGAAGAGC-G
1 GAGTAGGGATGGAGTTTCCCCAAGGATAAAATGATACAAAAGAGAATTTGATTTTTGAAGAGCAG
66469 GGT
66 GGT
66472 GTTAAGACGT
Statistics
Matches: 207, Mismatches: 24, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
82 3 0.01
83 65 0.31
85 4 0.02
86 127 0.61
87 2 0.01
89 6 0.03
ACGTcount: A:0.32, C:0.10, G:0.31, T:0.27
Consensus pattern (83 bp):
GAGTAGGGATGGAGTTTCCCCAAGGATAAAATGATACAAAAGAGAATTTGATTTTTGAAGAGCAG
GGTTAGAGTGTCCTCTTG
Found at i:71467 original size:21 final size:20
Alignment explanation
Indices: 71427--71468 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
71417 GGTCCCCAAA
*
71427 ATGTTTAAAATGCCTAAAAC
1 ATGTTTAAAATGCATAAAAC
*
71447 ATGTTTAAACATGCATGAAAC
1 ATGTTTAAA-ATGCATAAAAC
71468 A
1 A
71469 CATCTCACAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (20 bp):
ATGTTTAAAATGCATAAAAC
Found at i:74455 original size:16 final size:16
Alignment explanation
Indices: 74430--74460 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
74420 TATATATATA
74430 AAATTCTTAGTGAATT
1 AAATTCTTAGTGAATT
*
74446 AAATTGTTAGTGAAT
1 AAATTCTTAGTGAAT
74461 ACATATATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.03, G:0.16, T:0.42
Consensus pattern (16 bp):
AAATTCTTAGTGAATT
Found at i:78690 original size:2 final size:2
Alignment explanation
Indices: 78674--78710 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
78664 ACAATATTAT
*
78674 TA TA TA AA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
78711 AATGGTTTGC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:79612 original size:21 final size:21
Alignment explanation
Indices: 79588--79653 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
79578 CTTTTAGTAA
79588 GTATTTTTTTATTTAAAATAT
1 GTATTTTTTTATTTAAAATAT
***
79609 GTATTTTACAATTT---ATGA-
1 GTATTTTTTTATTTAAAAT-AT
79627 GT-TTTTTTTATTTAAAATAT
1 GTATTTTTTTATTTAAAATAT
79647 GTATTTT
1 GTATTTT
79654 ACAATTTATG
Statistics
Matches: 33, Mismatches: 6, Indels: 12
0.65 0.12 0.24
Matches are distributed among these distances:
17 8 0.24
18 4 0.12
19 2 0.06
20 4 0.12
21 15 0.45
ACGTcount: A:0.30, C:0.02, G:0.08, T:0.61
Consensus pattern (21 bp):
GTATTTTTTTATTTAAAATAT
Found at i:79641 original size:38 final size:38
Alignment explanation
Indices: 79591--79664 Score: 148
Period size: 38 Copynumber: 1.9 Consensus size: 38
79581 TTAGTAAGTA
79591 TTTTTTTATTTAAAATATGTATTTTACAATTTATGAGT
1 TTTTTTTATTTAAAATATGTATTTTACAATTTATGAGT
79629 TTTTTTTATTTAAAATATGTATTTTACAATTTATGA
1 TTTTTTTATTTAAAATATGTATTTTACAATTTATGA
79665 TTGAAAGCTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.32, C:0.03, G:0.07, T:0.58
Consensus pattern (38 bp):
TTTTTTTATTTAAAATATGTATTTTACAATTTATGAGT
Found at i:79653 original size:20 final size:20
Alignment explanation
Indices: 79592--79653 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
79582 TAGTAAGTAT
79592 TTTTTTATTTAAAATATGTA
1 TTTTTTATTTAAAATATGTA
** *
79612 TTTTACAATTT---ATGA-GTT
1 TTTT-TTATTTAAAAT-ATGTA
79630 TTTTTTATTTAAAATATGTA
1 TTTTTTATTTAAAATATGTA
79650 TTTT
1 TTTT
79654 ACAATTTATG
Statistics
Matches: 30, Mismatches: 6, Indels: 12
0.62 0.12 0.25
Matches are distributed among these distances:
17 4 0.13
18 8 0.27
19 2 0.07
20 12 0.40
21 4 0.13
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.61
Consensus pattern (20 bp):
TTTTTTATTTAAAATATGTA
Found at i:79660 original size:21 final size:21
Alignment explanation
Indices: 79598--79661 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
79588 GTATTTTTTT
79598 ATTTAAAATATGTATTTTACA
1 ATTTAAAATATGTATTTTACA
***
79619 ATTT---ATGA-GT-TTTTTTT
1 ATTTAAAAT-ATGTATTTTACA
79636 ATTTAAAATATGTATTTTACA
1 ATTTAAAATATGTATTTTACA
79657 ATTTA
1 ATTTA
79662 TGATTGAAAG
Statistics
Matches: 31, Mismatches: 6, Indels: 12
0.63 0.12 0.24
Matches are distributed among these distances:
17 8 0.26
18 4 0.13
19 2 0.06
20 4 0.13
21 13 0.42
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.55
Consensus pattern (21 bp):
ATTTAAAATATGTATTTTACA
Found at i:81994 original size:20 final size:19
Alignment explanation
Indices: 81939--81994 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
81929 AAAACCCTTA
*
81939 AAAGTATCGATACATAATTC
1 AAAGTATCGATACAT-GTTC
81959 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATGTT-C
*
81979 AATGTATCGATACATG
1 AAAGTATCGATACATG
81995 AAAAAGATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 2 0.06
20 31 0.94
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.30
Consensus pattern (19 bp):
AAAGTATCGATACATGTTC
Found at i:82071 original size:13 final size:13
Alignment explanation
Indices: 82053--82078 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
82043 TACAGCAAGT
82053 ATGTATCGATACA
1 ATGTATCGATACA
82066 ATGTATCGATACA
1 ATGTATCGATACA
82079 CAAAAAAATT
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:82240 original size:14 final size:14
Alignment explanation
Indices: 82221--82256 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
82211 TAAAGGCTAG
82221 AAACTCCATTAATC
1 AAACTCCATTAATC
82235 AAACTCCATTAATC
1 AAACTCCATTAATC
82249 AAACTCCA
1 AAACTCCA
82257 ACGGCTACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (14 bp):
AAACTCCATTAATC
Found at i:84340 original size:21 final size:21
Alignment explanation
Indices: 84307--84351 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
84297 TTGCAAGTTG
*
84307 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
84329 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
84349 AAA
1 AAA
84352 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:86175 original size:15 final size:15
Alignment explanation
Indices: 86155--86185 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
86145 TAAAAATGTC
*
86155 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
86170 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
86185 C
1 C
86186 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:88350 original size:24 final size:23
Alignment explanation
Indices: 88275--88367 Score: 72
Period size: 24 Copynumber: 4.2 Consensus size: 23
88265 AAGAGAAAGA
* *
88275 AGAGAGAGGAGGGATGATAAAAGG
1 AGAGACAGGAGGGATGAT-AGAGG
*
88299 AGAGACAGGA--GA-GAT--AGT
1 AGAGACAGGAGGGATGATAGAGG
*
88317 AGAGATAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATA-GAGG
* *
88341 AGAGACAGGAGAGATAATAGA-G
1 AGAGACAGGAGGGATGATAGAGG
88363 AGAGA
1 AGAGA
88368 AGGGATGACA
Statistics
Matches: 56, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
18 11 0.20
20 2 0.04
21 6 0.11
22 8 0.14
23 2 0.04
24 27 0.48
ACGTcount: A:0.45, C:0.02, G:0.43, T:0.10
Consensus pattern (23 bp):
AGAGACAGGAGGGATGATAGAGG
Found at i:88381 original size:42 final size:42
Alignment explanation
Indices: 88275--88384 Score: 166
Period size: 42 Copynumber: 2.6 Consensus size: 42
88265 AAGAGAAAGA
** *
88275 AGAGAGAGGAGGGATGATAAAAGGAGAGACAGGAGAGATAGT
1 AGAGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAAT
*
88317 AGAGATAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAAT
1 AGAGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAAT
* *
88359 AGAGAGAGAAGGGATGACAGGAGGAG
1 AGAGAGAGGAGGGATGATAGGAGGAG
88385 GAGAGAAGAA
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.44, C:0.03, G:0.45, T:0.09
Consensus pattern (42 bp):
AGAGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAAT
Found at i:94995 original size:13 final size:13
Alignment explanation
Indices: 94977--95002 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
94967 ACATTTTTCT
94977 TTGTATCGATACA
1 TTGTATCGATACA
94990 TTGTATCGATACA
1 TTGTATCGATACA
95003 GGGTGATTAT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:97478 original size:20 final size:19
Alignment explanation
Indices: 97423--97478 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
97413 AAAACCCTTA
*
97423 AAAGTATCGATACATAATTC
1 AAAGTATCGATACAT-GTTC
97443 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATGTT-C
*
97463 AATGTATCGATACATG
1 AAAGTATCGATACATG
97479 AAAAAGATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 2 0.06
20 31 0.94
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.30
Consensus pattern (19 bp):
AAAGTATCGATACATGTTC
Found at i:97555 original size:13 final size:13
Alignment explanation
Indices: 97537--97562 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
97527 TACAGCAAGT
97537 ATGTATCGATACA
1 ATGTATCGATACA
97550 ATGTATCGATACA
1 ATGTATCGATACA
97563 CAAAAAAATT
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:101336 original size:2 final size:2
Alignment explanation
Indices: 101329--101356 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
101319 AATTATTTTC
101329 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
101357 CACTTTGGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:107669 original size:13 final size:13
Alignment explanation
Indices: 107651--107708 Score: 53
Period size: 13 Copynumber: 3.9 Consensus size: 13
107641 CATAAAGTGT
107651 TGTATCGATACAA
1 TGTATCGATACAA
107664 TGTATCGATACATA
1 TGTATCGATACA-A
107678 TTTTTTTGTATCGATACAA
1 ------TGTATCGATACAA
107697 TGTATCGATACA
1 TGTATCGATACA
107709 TATTTTTTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 24 0.63
14 1 0.03
19 1 0.03
20 12 0.32
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.40
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:107673 original size:33 final size:33
Alignment explanation
Indices: 107631--107730 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
107621 TTCAACGATT
*** *
107631 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATATTTTTTTGTATCGATACAA
107664 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATATTTTTTTGTATCGATACAA
107697 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATATTTTTTTGTATCGATACAA
107730 T
1 T
107731 TTAAGCTACT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 63 1.00
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATATTTTTTTGTATCGATACAA
Found at i:107689 original size:20 final size:19
Alignment explanation
Indices: 107664--107732 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 19
107654 ATCGATACAA
107664 TGTATCGATACATATTTTTT
1 TGTATCGATACA-ATTTTTT
107684 TGTATCGATACAA------
1 TGTATCGATACAATTTTTT
107697 TGTATCGATACATATTTTTT
1 TGTATCGATACA-ATTTTTT
107717 TGTATCGATACAATTT
1 TGTATCGATACAATTT
107733 AAGCTACTGC
Statistics
Matches: 42, Mismatches: 0, Indels: 15
0.74 0.00 0.26
Matches are distributed among these distances:
13 12 0.29
14 1 0.02
19 5 0.12
20 24 0.57
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.48
Consensus pattern (19 bp):
TGTATCGATACAATTTTTT
Found at i:107833 original size:52 final size:52
Alignment explanation
Indices: 107791--107915 Score: 205
Period size: 52 Copynumber: 2.4 Consensus size: 52
107781 CATTGATCTT
107791 TGTATCAATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCAATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
* * *
107843 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCAATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
* *
107895 TGTATCGATACATGCAAGCAA
1 TGTATCAATACATGCAGGCAA
107916 CTTTTCATAT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (52 bp):
TGTATCAATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
Found at i:120410 original size:22 final size:22
Alignment explanation
Indices: 120377--120439 Score: 78
Period size: 22 Copynumber: 2.9 Consensus size: 22
120367 TTGAATTATT
*
120377 ATTT-ATTAATAAAATTATTTAA
1 ATTTAATT-ATAAAATTATATAA
120399 ATTTAATTATAAAA-TATATAA
1 ATTTAATTATAAAATTATATAA
120420 ATATTAA-TATAAAATTATAT
1 AT-TTAATTATAAAATTATAT
120440 TTTAATAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
21 15 0.41
22 19 0.51
23 3 0.08
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
ATTTAATTATAAAATTATATAA
Found at i:120430 original size:21 final size:21
Alignment explanation
Indices: 120380--120439 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
120370 AATTATTATT
* *
120380 TATTAATA-AAATTATTTAAA
1 TATTAATATAAAATATATAAA
120400 T-TTAATTATAAAATATATAAA
1 TATTAA-TATAAAATATATAAA
120421 TATTAATATAAAATTATAT
1 TATTAATATAAAA-TATAT
120440 TTTAATAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 4 0.12
20 3 0.09
21 18 0.53
22 9 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TATTAATATAAAATATATAAA
Found at i:123432 original size:105 final size:106
Alignment explanation
Indices: 123250--123461 Score: 381
Period size: 105 Copynumber: 2.0 Consensus size: 106
123240 AACACAACTG
* * *
123250 AACATGGTAGTGATTGTGCGAGAGACGGTCTATTTTGTTTTTCTTGACTCACAATTGATCTTTTG
1 AACATGGTAGTGATTGTGCAAGAGACAGTCTATTCTGTTTTTCTTGACTCACAATTGATCTTTTG
*
123315 GAAAAGCAAGAAAAAAGGGGGGATTTAAAGCC-GCTTTTCA
66 GAAAAGCAAGAAAAAAGGGGCGATTTAAAGCCAGCTTTTCA
123355 AACATGGTAGTGATTGTGCAAGAGACAGTCTATTCTGTTTTTCTTGACTCACAATTGATCTTTTG
1 AACATGGTAGTGATTGTGCAAGAGACAGTCTATTCTGTTTTTCTTGACTCACAATTGATCTTTTG
123420 GAAAAGCAAGAAAAAAGGGGCGATTTAAAGCCAGCTTTTCA
66 GAAAAGCAAGAAAAAAGGGGCGATTTAAAGCCAGCTTTTCA
123461 A
1 A
123462 TAGTCTCAAG
Statistics
Matches: 102, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
105 93 0.91
106 9 0.09
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (106 bp):
AACATGGTAGTGATTGTGCAAGAGACAGTCTATTCTGTTTTTCTTGACTCACAATTGATCTTTTG
GAAAAGCAAGAAAAAAGGGGCGATTTAAAGCCAGCTTTTCA
Found at i:125257 original size:25 final size:25
Alignment explanation
Indices: 125222--125271 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
125212 ATTCTTGGGA
* *
125222 TAAGGGTTTTGACTTAGGAATATTT
1 TAAGGGATTTGACTTAGGAAAATTT
*
125247 TAAGGGATTTGATTTAGGAAAATTT
1 TAAGGGATTTGACTTAGGAAAATTT
125272 AGTGTCCTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.32, C:0.02, G:0.24, T:0.42
Consensus pattern (25 bp):
TAAGGGATTTGACTTAGGAAAATTT
Found at i:126045 original size:3 final size:3
Alignment explanation
Indices: 126039--126063 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
126029 AATATCAAAG
126039 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
126064 TAAAATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:127202 original size:16 final size:17
Alignment explanation
Indices: 127178--127212 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
127168 TAAATTCAAG
127178 TTCAAGTTCGAG-TTTT
1 TTCAAGTTCGAGCTTTT
*
127194 TTCAGGTTCGAGCTTTT
1 TTCAAGTTCGAGCTTTT
127211 TT
1 TT
127213 GTGCTAGATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.14, C:0.14, G:0.20, T:0.51
Consensus pattern (17 bp):
TTCAAGTTCGAGCTTTT
Found at i:128598 original size:15 final size:15
Alignment explanation
Indices: 128578--128606 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
128568 AGCATTTACA
128578 CCTACTACAACTACG
1 CCTACTACAACTACG
128593 CCTACTACAACTAC
1 CCTACTACAACTAC
128607 ACCACTTGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.41, G:0.03, T:0.21
Consensus pattern (15 bp):
CCTACTACAACTACG
Found at i:133816 original size:103 final size:105
Alignment explanation
Indices: 133625--133833 Score: 298
Period size: 103 Copynumber: 2.0 Consensus size: 105
133615 ATTGTCGTGC
* * * *
133625 TTACGAACAAGATCTGCGTCTCTCTTTCGTTCTCACCTAATATTGTTTTGTTTCCCTTTCGCACT
1 TTACAAACAAGATCTGCGTCTCTCTTTCGGTCTCACCTAATATTCTTTTGCTTCCCTTTCGCACT
* * **
133690 TTTATGGATTTTTTGCCGTTGTAGC-TTTTTTCATCGAAA
66 TTTATGAATGTTTTGCCAATGTAGCTTTTTTTCATCGAAA
* *
133729 TTACAAACTAGATCTGCGTCTCTCTTTCGGTCT-ACCTAGTATTCTTTTGCTTCCC-TTCGGCAC
1 TTACAAACAAGATCTGCGTCTCTCTTTCGGTCTCACCTAATATTCTTTTGCTTCCCTTTC-GCAC
133792 TTTTATGAATGTTTTGCCAATGTAGCTTTTTTTCATCGAAA
65 TTTTATGAATGTTTTGCCAATGTAGCTTTTTTTCATCGAAA
133833 T
1 T
133834 CTTTTTATTA
Statistics
Matches: 93, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
102 3 0.03
103 45 0.48
104 45 0.48
ACGTcount: A:0.18, C:0.22, G:0.14, T:0.45
Consensus pattern (105 bp):
TTACAAACAAGATCTGCGTCTCTCTTTCGGTCTCACCTAATATTCTTTTGCTTCCCTTTCGCACT
TTTATGAATGTTTTGCCAATGTAGCTTTTTTTCATCGAAA
Found at i:134315 original size:14 final size:15
Alignment explanation
Indices: 134292--134325 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
134282 TATTTTTATG
*
134292 TTTTGTATTTAT-TT
1 TTTTGAATTTATCTT
134306 TTTTGAATTTATCTT
1 TTTTGAATTTATCTT
134321 TTTTG
1 TTTTG
134326 GTTTTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.15, C:0.03, G:0.09, T:0.74
Consensus pattern (15 bp):
TTTTGAATTTATCTT
Found at i:134346 original size:30 final size:30
Alignment explanation
Indices: 134312--134385 Score: 130
Period size: 30 Copynumber: 2.5 Consensus size: 30
134302 ATTTTTTTGA
*
134312 ATTTATCTTTTTTGGTTTTTTATATCTTTT
1 ATTTATCTTTTTTGGTTATTTATATCTTTT
134342 ATTTATCTTTTTTGGTTATTTATATCTTTT
1 ATTTATCTTTTTTGGTTATTTATATCTTTT
*
134372 ATTTATTTTTTTTG
1 ATTTATCTTTTTTG
134386 AATTTATTGA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.15, C:0.05, G:0.07, T:0.73
Consensus pattern (30 bp):
ATTTATCTTTTTTGGTTATTTATATCTTTT
Found at i:137287 original size:13 final size:13
Alignment explanation
Indices: 137269--137294 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
137259 TACAGCAAGT
137269 ATGTATCGATACA
1 ATGTATCGATACA
137282 ATGTATCGATACA
1 ATGTATCGATACA
137295 CAAAAAATTG
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:137789 original size:20 final size:20
Alignment explanation
Indices: 137766--137839 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
137756 ACAATTCAAA
137766 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
* ****
137786 GTATCGATATATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
137807 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
137827 GTATCGATACATG
1 GTATCGATACATG
137840 AAAAAGATGT
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 28 0.65
21 15 0.35
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:137810 original size:21 final size:21
Alignment explanation
Indices: 137784--137859 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
137774 ACATGTTGCA
*
137784 ATGTATCGATATATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
137805 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
137825 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
137846 ATGTATCGATACAT
1 ATGTATCGATACAT
137860 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 16 0.36
21 29 0.64
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:137815 original size:41 final size:41
Alignment explanation
Indices: 137766--137859 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
137756 ACAATTCAAA
*
137766 GTATCGATACATGTTGCAATGTATCGATATATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
137807 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
137848 GTATCGATACAT
1 GTATCGATACAT
137860 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
Found at i:137916 original size:13 final size:13
Alignment explanation
Indices: 137898--137923 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
137888 TACAGCAAGT
137898 ATGTATCGATACA
1 ATGTATCGATACA
137911 ATGTATCGATACA
1 ATGTATCGATACA
137924 CAAAAAATTG
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:138444 original size:34 final size:35
Alignment explanation
Indices: 138381--138447 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
138371 CTAAGTGATT
138381 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
138417 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
138448 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:141600 original size:13 final size:13
Alignment explanation
Indices: 141582--141606 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
141572 TTTTCCAGAT
141582 TGTATCGATACAA
1 TGTATCGATACAA
141595 TGTATCGATACA
1 TGTATCGATACA
141607 TTGCTTCAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:143403 original size:20 final size:20
Alignment explanation
Indices: 143380--143453 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
143370 ACAATTCAAA
143380 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
* ****
143400 GTATCGATATATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
143421 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
143441 GTATCGATACATG
1 GTATCGATACATG
143454 AAAAAGATGT
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 28 0.65
21 15 0.35
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:143424 original size:21 final size:21
Alignment explanation
Indices: 143398--143473 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
143388 ACATGTTGCA
*
143398 ATGTATCGATATATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
143419 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
143439 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
143460 ATGTATCGATACAT
1 ATGTATCGATACAT
143474 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 16 0.36
21 29 0.64
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:143429 original size:41 final size:41
Alignment explanation
Indices: 143380--143473 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
143370 ACAATTCAAA
*
143380 GTATCGATACATGTTGCAATGTATCGATATATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
143421 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
143462 GTATCGATACAT
1 GTATCGATACAT
143474 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
Found at i:143530 original size:13 final size:13
Alignment explanation
Indices: 143512--143537 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
143502 TACAGCAAGT
143512 ATGTATCGATACA
1 ATGTATCGATACA
143525 ATGTATCGATACA
1 ATGTATCGATACA
143538 CAAAAAATTG
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:144057 original size:34 final size:35
Alignment explanation
Indices: 143994--144060 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
143984 CTAAGTGATT
143994 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
144030 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
144061 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:146384 original size:21 final size:21
Alignment explanation
Indices: 146351--146395 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
146341 TGCAAGATTG
*
146351 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
146373 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
146393 AAA
1 AAA
146396 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:148214 original size:15 final size:15
Alignment explanation
Indices: 148194--148224 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
148184 TAAAAATGTC
*
148194 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
148209 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
148224 C
1 C
148225 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:150310 original size:13 final size:13
Alignment explanation
Indices: 150292--150317 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
150282 ATACATTTTC
150292 TTGTATCGATACA
1 TTGTATCGATACA
150305 TTGTATCGATACA
1 TTGTATCGATACA
150318 GGGTGATTAT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:150483 original size:20 final size:20
Alignment explanation
Indices: 150440--150485 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
150430 AAATCTTTTG
150440 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
150461 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
150481 CAAAA
1 CAAAA
150486 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Done.