Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002977.1 Hibiscus syriacus cultivar Beakdansim tig00006156_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 85176
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.31
Found at i:16670 original size:687 final size:688
Alignment explanation
Indices: 15312--16692 Score: 2728
Period size: 687 Copynumber: 2.0 Consensus size: 688
15302 TATTTTCAGA
*
15312 ATATAGACTAAGTATGTATTTCAAAAGTAATGTGGCTTTTTTTTTAAAAAAAATGAAAACTAATA
1 ATATAGACTAAGTATGTATTTCAAAAGTAATGTGGC-TTTTTTTAAAAAAAAATGAAAACTAATA
15377 CCATAAAATTGGATTCCATGAAAATGTCAAAGTTCAGACTTAAATTAGCTTCCGTGAAACTCAAG
65 CCATAAAATTGGATTCCATGAAAATGTCAAAGTTCAGACTTAAATTAGCTTCCGTGAAACTCAAG
15442 AAAATCTTCAATCACAACATGGAAAAGATTGGACGTTAAGAGTACATAATAATCCCCAAGTATCC
130 AAAATCTTCAATCACAACATGGAAAAGATTGGACGTTAAGAGTACATAATAATCCCCAAGTATCC
15507 TATTTATATTCAGATGTATTTTTGGTTTTTCCTAGCAATTTTAGAACAGTCATACTTCCAACACA
195 TATTTATATTCAGATGTATTTTTGGTTTTTCCTAGCAATTTTAGAACAGTCATACTTCCAACACA
15572 TGGCTAATGGTAGAGAGGCTCAACATGAATATCAAACTAATGTAAAATAATTTTTCATTTACCAT
260 TGGCTAATGGTAGAGAGGCTCAACATGAATATCAAACTAATGTAAAATAATTTTTCATTTACCAT
15637 ATCGACTAAGTTTCCTAAAAAGAATTGCTATGGGGTTACCCCAAATTGATTGGATAGGAAGAATT
325 ATCGACTAAGTTTCCTAAAAAGAATTGCTATGGGGTTACCCCAAATTGATTGGATAGGAAGAATT
15702 GACACTGAAAATAAAAGAATATGGAGGATCCAAACTCTTTCTGTGTACGAACAAATAAGGAATAA
390 GACACTGAAAATAAAAGAATATGGAGGATCCAAACTCTTTCTGTGTACGAACAAATAAGGAATAA
15767 CACTACTAAGAGCACATTTTTTAAAATTATTTCTATAAAAATAAAAATCATATAAACATTAAATA
455 CACTACTAAGAGCACATTTTTTAAAATTATTTCTATAAAAATAAAAATCATATAAACATTAAATA
15832 GGCTGGAAGCATGCACGAGAAAAATTGAGATGAAAGAATTTCTTACAGAGTCTGTGTGATGGCAT
520 GGCTGGAAGCATGCACGAGAAAAATTGAGATGAAAGAATTTCTTACAGAGTCTGTGTGATGGCAT
15897 TTCTCAATGTCCATCTCAACATAAAGAAGTGAATCTTCCAGTGGGCTACAAGTTCAGCATGAAAA
585 TTCTCAATGTCCATCTCAACATAAAGAAGTGAATCTTCCAGTGGGCTACAAGTTCAGCATGAAAA
15962 AAAGTTTAGCCAATAAGTCTCAATAATGAAAGAGAAAAG
650 AAAGTTTAGCCAATAAGTCTCAATAATGAAAGAGAAAAG
16001 ATATAGACTAAGTATGTATTTCAAAAGTAATGTGGC-TTTTTTAAAAAAAAATGAAAACTAATAC
1 ATATAGACTAAGTATGTATTTCAAAAGTAATGTGGCTTTTTTTAAAAAAAAATGAAAACTAATAC
16065 CATAAAATTGGATTCCATGAAAATGTCAAAGTTCAGACTTAAATTAGCTTCCGTGAAACTCAAGA
66 CATAAAATTGGATTCCATGAAAATGTCAAAGTTCAGACTTAAATTAGCTTCCGTGAAACTCAAGA
*
16130 AAATCTTCAATCACAACATGGAAAAGATTGGACGTTAAGAGTACATAATAATCCCTAAGTATCCT
131 AAATCTTCAATCACAACATGGAAAAGATTGGACGTTAAGAGTACATAATAATCCCCAAGTATCCT
16195 ATTTATATTCAGATGTATTTTTGGTTTTTCCTAGCAATTTTAGAACAGTCATACTTCCAACACAT
196 ATTTATATTCAGATGTATTTTTGGTTTTTCCTAGCAATTTTAGAACAGTCATACTTCCAACACAT
16260 GGCTAATGGTAGAGAGGCTCAACATGAATATCAAACTAATGTAAAATAATTTTTCATTTACCATA
261 GGCTAATGGTAGAGAGGCTCAACATGAATATCAAACTAATGTAAAATAATTTTTCATTTACCATA
16325 TCGACTAAGTTTCCTAAAAAGAATTGCTATGGGGTTACCCCAAATTGATTGGATAGGAAGAATTG
326 TCGACTAAGTTTCCTAAAAAGAATTGCTATGGGGTTACCCCAAATTGATTGGATAGGAAGAATTG
16390 ACACTGAAAATAAAAGAATATGGAGGATCCAAACTCTTTCTGTGTACGAACAAATAAGGAATAAC
391 ACACTGAAAATAAAAGAATATGGAGGATCCAAACTCTTTCTGTGTACGAACAAATAAGGAATAAC
16455 ACTACTAAGAGCACATTTTTTAAAATTATTTCTATAAAAATAAAAATCATATAAACATTAAATAG
456 ACTACTAAGAGCACATTTTTTAAAATTATTTCTATAAAAATAAAAATCATATAAACATTAAATAG
16520 GCTGGAAGCATGCACGAGAAAAATTGAGATGAAAGAATTTCTTACAGAGTCTGTGTGATGGCATT
521 GCTGGAAGCATGCACGAGAAAAATTGAGATGAAAGAATTTCTTACAGAGTCTGTGTGATGGCATT
16585 TCTCAATGTCCATCTCAACATAAAGAAGTGAATCTTCCAGTGGGCTACAAGTTCAGCATGAAAAA
586 TCTCAATGTCCATCTCAACATAAAGAAGTGAATCTTCCAGTGGGCTACAAGTTCAGCATGAAAAA
16650 AAGTTTAGCCAATAAGTCTCAATAATGAAAGAGAAAAG
651 AAGTTTAGCCAATAAGTCTCAATAATGAAAGAGAAAAG
16688 ATATA
1 ATATA
16693 AGGCTTTGAT
Statistics
Matches: 690, Mismatches: 2, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
687 654 0.95
689 36 0.05
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.29
Consensus pattern (688 bp):
ATATAGACTAAGTATGTATTTCAAAAGTAATGTGGCTTTTTTTAAAAAAAAATGAAAACTAATAC
CATAAAATTGGATTCCATGAAAATGTCAAAGTTCAGACTTAAATTAGCTTCCGTGAAACTCAAGA
AAATCTTCAATCACAACATGGAAAAGATTGGACGTTAAGAGTACATAATAATCCCCAAGTATCCT
ATTTATATTCAGATGTATTTTTGGTTTTTCCTAGCAATTTTAGAACAGTCATACTTCCAACACAT
GGCTAATGGTAGAGAGGCTCAACATGAATATCAAACTAATGTAAAATAATTTTTCATTTACCATA
TCGACTAAGTTTCCTAAAAAGAATTGCTATGGGGTTACCCCAAATTGATTGGATAGGAAGAATTG
ACACTGAAAATAAAAGAATATGGAGGATCCAAACTCTTTCTGTGTACGAACAAATAAGGAATAAC
ACTACTAAGAGCACATTTTTTAAAATTATTTCTATAAAAATAAAAATCATATAAACATTAAATAG
GCTGGAAGCATGCACGAGAAAAATTGAGATGAAAGAATTTCTTACAGAGTCTGTGTGATGGCATT
TCTCAATGTCCATCTCAACATAAAGAAGTGAATCTTCCAGTGGGCTACAAGTTCAGCATGAAAAA
AAGTTTAGCCAATAAGTCTCAATAATGAAAGAGAAAAG
Found at i:17150 original size:157 final size:163
Alignment explanation
Indices: 16854--17151 Score: 419
Period size: 157 Copynumber: 1.9 Consensus size: 163
16844 TATAGACTAG
* ** *
16854 ATCCATGCAATGACGAGAAACCTTTTCAATTTTATTACCATTATACACAAGTTACAAAGATAAGC
1 ATCCATGCAATGACGAAAAACCTTTTCAATTGGATTACCATTATACACAAGTTACAAACATAAGC
* *
16919 TAACAATTACTAATTACAATGGGAGAATAAAAGCTATGCAAATATGTAATTAACATGTTGAGTCA
66 TAACAA-TACTAATTA-AATGGGAGAATAAAAGCTATACAAATATATAATTAACATGTTGAGTCA
*
16984 CAAATATGTAAAAAAAAGAAGAAGATGTAATTAAC
129 CAAACATGTAAAAAAAAGAAGAAGATGTAATTAAC
**
17019 ATCCATGCAATGACGAAAAACCTTTTCAATTGGATTATTATTA-A-ACAAGTTACAAACATAAGC
1 ATCCATGCAATGACGAAAAACCTTTTCAATTGGATTACCATTATACACAAGTTACAAACATAAGC
* * *
17082 TAA-GA-ACTAA-T-AATGGGAGAATGAAAGCTATACAAATATATAATTAACATGTTGAGTCACT
66 TAACAATACTAATTAAATGGGAGAATAAAAGCTATACAAATATATAATTAACATGTTGAGTCACA
*
17143 GACATGTAA
131 AACATGTAA
17152 CCTGAAAAAA
Statistics
Matches: 120, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
157 53 0.44
159 1 0.01
160 5 0.04
162 1 0.01
163 21 0.17
164 1 0.01
165 38 0.32
ACGTcount: A:0.45, C:0.13, G:0.14, T:0.28
Consensus pattern (163 bp):
ATCCATGCAATGACGAAAAACCTTTTCAATTGGATTACCATTATACACAAGTTACAAACATAAGC
TAACAATACTAATTAAATGGGAGAATAAAAGCTATACAAATATATAATTAACATGTTGAGTCACA
AACATGTAAAAAAAAGAAGAAGATGTAATTAAC
Found at i:17727 original size:126 final size:124
Alignment explanation
Indices: 17493--17745 Score: 479
Period size: 126 Copynumber: 2.0 Consensus size: 124
17483 ATACATAAGA
*
17493 CCACATGTTACAAGCTAACTTCATGAAAAACAGTACAACAACAAAATAACACAGAATTTGAACAC
1 CCACATGTTACAAGCTAACTTAATGAAAAACAGTACAACAACAAAATAACACAGAATTTGAACAC
17558 ATTCACCCAATCCCCTCCTTAGCTAACTTGTCTGCCTCCCAATTACAGCTTCTAGGAAT
66 ATTCACCCAATCCCCTCCTTAGCTAACTTGTCTGCCTCCCAATTACAGCTTCTAGGAAT
17617 CCACATGTTACACAAGCTAACTTAATGAAAAACAGTACAACAACAAAATAACACAGAATTTGAAC
1 CCACATGTT--ACAAGCTAACTTAATGAAAAACAGTACAACAACAAAATAACACAGAATTTGAAC
17682 ACATTCACCCAATCCCCTCCTTAGCTAACTTGTCTGCCTCCCAATTACAGCTTCTAGGAAT
64 ACATTCACCCAATCCCCTCCTTAGCTAACTTGTCTGCCTCCCAATTACAGCTTCTAGGAAT
17743 CCA
1 CCA
17746 TCTGATGATA
Statistics
Matches: 126, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
124 9 0.07
126 117 0.93
ACGTcount: A:0.38, C:0.29, G:0.09, T:0.24
Consensus pattern (124 bp):
CCACATGTTACAAGCTAACTTAATGAAAAACAGTACAACAACAAAATAACACAGAATTTGAACAC
ATTCACCCAATCCCCTCCTTAGCTAACTTGTCTGCCTCCCAATTACAGCTTCTAGGAAT
Found at i:21471 original size:47 final size:47
Alignment explanation
Indices: 21394--21493 Score: 173
Period size: 47 Copynumber: 2.1 Consensus size: 47
21384 CTACTCTGAA
*
21394 AATTTTACCTAGATTTTATATATATGCACGTGTATACATATATACAT
1 AATTTTACCTAGATTTTATATATATACACGTGTATACATATATACAT
* *
21441 AATTTTACCTAGATTTTATATGTATACACGTGTTTACATATATACAT
1 AATTTTACCTAGATTTTATATATATACACGTGTATACATATATACAT
21488 AATTTT
1 AATTTT
21494 TGAAACATTA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (47 bp):
AATTTTACCTAGATTTTATATATATACACGTGTATACATATATACAT
Found at i:24793 original size:317 final size:318
Alignment explanation
Indices: 24217--24856 Score: 1237
Period size: 317 Copynumber: 2.0 Consensus size: 318
24207 AATAATTATT
24217 ATTTTCAGAATATAGACTAAGTATGCATTTTATCAAAAGTAATGTGACTTCTTTAAAACAAAATT
1 ATTTTCAGAATATAGACTAAGTATGCATTTTATCAAAAGTAATGTGACTTCTTTAAAACAAAATT
*
24282 AAAACTAATACCCTAAAATTGGATTCCATGAAAACGTCAGAGTTCAGACTTAAATTAGCTTCTGT
66 AAAACTAATACCATAAAATTGGATTCCATGAAAACGTCAGAGTTCAGACTTAAATTAGCTTCTGT
*
24347 GAAACTCAAGAAAATCTTAAATGACCAAATGGAAAAGATAGCACGTTAAGGGTAAATAATAATCC
131 GAAACTCAAGAAAATCTTAAATCACCAAATGGAAAAGATAGCACGTTAAGGGTAAATAATAATCC
24412 CAAGTATCCTATTTATATTTAGATGCATTCTTGGTGCTTCCTAGCAATTTTTGAACATTTATACT
196 CAAGTATCCTATTTATATTTAGATGCATTCTTGGTGCTTCCTAGCAATTTTTGAACATTTATACT
24477 TCCAACAGATGGCTAATGGTAGAGAGGGTCAACATGAATATCAACCTAGTGTATAATA
261 TCCAACAGATGGCTAATGGTAGAGAGGGTCAACATGAATATCAACCTAGTGTATAATA
*
24535 ATTTTCAGAATATAGACTAAGTATGCATTTTATCAAAAGTAATGTGACTTCTTTAAAA-AAATTT
1 ATTTTCAGAATATAGACTAAGTATGCATTTTATCAAAAGTAATGTGACTTCTTTAAAACAAAATT
24599 AAAACTAATACCATAAAATTGGATTCCATGAAAACGTCAGAGTTCAGACTTAAATTAGCTTCTGT
66 AAAACTAATACCATAAAATTGGATTCCATGAAAACGTCAGAGTTCAGACTTAAATTAGCTTCTGT
*
24664 GAAACTCAAGAAAATCTTAAATCACCAAATGGAAAAGATAGCACGTTAAGGGTACATAATAATCC
131 GAAACTCAAGAAAATCTTAAATCACCAAATGGAAAAGATAGCACGTTAAGGGTAAATAATAATCC
24729 CAAGTATCCTATTTATATTTAGATGCATTCTTGGTGCTTCCTAGCAATTTTTGAACATTTATACT
196 CAAGTATCCTATTTATATTTAGATGCATTCTTGGTGCTTCCTAGCAATTTTTGAACATTTATACT
24794 TCCAACAGATGGCTAATGGTAGAGAGGGTCAACATGAATATCAACCTAGTGTATAATA
261 TCCAACAGATGGCTAATGGTAGAGAGGGTCAACATGAATATCAACCTAGTGTATAATA
24852 ATTTT
1 ATTTT
24857 GCATTTACCA
Statistics
Matches: 318, Mismatches: 4, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
317 260 0.82
318 58 0.18
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (318 bp):
ATTTTCAGAATATAGACTAAGTATGCATTTTATCAAAAGTAATGTGACTTCTTTAAAACAAAATT
AAAACTAATACCATAAAATTGGATTCCATGAAAACGTCAGAGTTCAGACTTAAATTAGCTTCTGT
GAAACTCAAGAAAATCTTAAATCACCAAATGGAAAAGATAGCACGTTAAGGGTAAATAATAATCC
CAAGTATCCTATTTATATTTAGATGCATTCTTGGTGCTTCCTAGCAATTTTTGAACATTTATACT
TCCAACAGATGGCTAATGGTAGAGAGGGTCAACATGAATATCAACCTAGTGTATAATA
Found at i:27700 original size:816 final size:815
Alignment explanation
Indices: 25387--27834 Score: 4523
Period size: 812 Copynumber: 3.0 Consensus size: 815
25377 CAAAATCAGT
25387 CGTTATTACATAACACATCCATTTTCAATAAGAAGCAGCAACAAATTTATAACATATAAAGTTCT
1 CGTTATTACATAACACATCCATTTTCAATAAGAAGCAGCAACAAATTTATAACATATAAAGTTCT
25452 CTTCTTTCTTTCTTTTTTTTCCTGTAAACAAGACACTAAATCAAGAAAGACCA-AAAATATATGC
66 CTTCTTTCTTTCTTTTTTTTCCTGTAAACAAGACACTAAATCAAGAAAGA-CAGAAAATATATGC
* *
25516 CAAGGGTAAGTACCAATTTTGGCAGGGAGTGGAGAGGATG-TT-AGAGTAGGTGAGGGGGCGGTC
130 CATGGGCAAGTACCAATTTTGGCAGGGAGTGGAGAGGATGTTTAAGAGTAGGTGAGGGGGCGGTC
*
25579 CCGAGCCTCGTCGGAATTGTCGTCATCGTCAGGATCGTTGGTGGAGAGGTTGACACAGGAGAAAC
195 CCTAGCCTCGTCGGAATTGTCGTCATCGTCAGGATCGTTGGTGGAGAGGTTGACACAGGAGAAAC
25644 GCTCCAGGGATGAGAAGAAGGCCGAGACCACAGTGGCGCTGACCCAGCCGGCGACCTCTCCCAAC
260 GCTCCAGGGATGAGAAGAAGGCCGAGACCACAGTGGCGCTGACCCAGCCGGCGACCTCTCCCAAC
*
25709 TTCTCGCGGTATCAACCATCTTTATACACTTTAAATCGAGGAGAAACAAAAATAAATTTACTGTT
325 TTCTCGCGGCATCAACCATCTTTATACACTTTAAATCGAGGAGAAACAAAAATAAATTTACTGTT
*
25774 AAAAGGATACGCGGAATTGAATCTTGAATGTAGTTTAGGTTACCTGAAGGATTTTGGTAAAAGGG
390 AAAAGAATACGCGGAATTGAATCTTGAATGTAGTTTAGGTTACCTGAAGGATTTTGGTAAAAGGG
25839 TTATGAATTTATTTTCTTGGAATATAGCCGTTGGGAGACGTTGGTTGAATCACTATATCACCGTA
455 TTATGAATTTATTTTCTTGGAATATAGCCGTTGGGAGACGTTGGTTGAATCACTATATCACCGTA
25904 ATATGTTTGAAAGAATACGCTAACCTTTATCTGAAAAAATACTATACCACCGTAATATATTTTTC
520 ATATGTTTGAAAGAATACGCTAACCTTTATCTGAAAAAATACTATACCACCGTAATATATTTTTC
25969 CCAGCATGCTTCTCTTTGACAACCGAGCAATCATGAAAAATAATAATAACAGTTGATTTAATTTA
585 CCAGCATGCTTCTCTTTGACAACCGAGCAATCATGAAAAATAATAATAACAGTTGATTTAATTTA
26034 GAAAATAAAAAAGGGAAAACAAGACACATTTTGTACTGAAATACAAAAAATAAAAACAATACAAT
650 GAAAATAAAAAAGGGAAAACAAGACACATTTTGTACTGAAATACAAAAAATAAAAACAATACAAT
* *
26099 TTGGCATGAAAGTTTCTGGGATGGCTATAATATGGACAGCTGTTATATGTGATGCAAAAGTCAAG
715 TTGGCATGAAAGTTTCTGGGATGGCTATAATATGGACAGCTGCTATATGTGGTGCAAAAGTCAAG
*
26164 AGGGCCTTATCAAAGCAGGCATGTCAAATAGAGACA
780 AGGGCCTTATTAAAGCAGGCATGTCAAATAGAGACA
* *
26200 TGTTATTGCATAACACATCCATTTTCAATAAGAAGCAGCAACAAATTTATAACATATAAAGTTCT
1 CGTTATTACATAACACATCCATTTTCAATAAGAAGCAGCAACAAATTTATAACATATAAAGTTCT
* *
26265 CTTCTTTCTTTCTTTTTTTTCCTTTAAACAAGAC-CTAAATCAAGAAAGACCGAAAATATATGCC
66 CTTCTTTCTTTCTTTTTTTTCCTGTAAACAAGACACTAAATCAAGAAAGACAGAAAATATATGCC
*
26329 ATGGGCAAGTACCAATTTTGGCAGGGAGTGGAGA-GATTTTTAAGAGTAGGTGA-GGGGC-GTCC
131 ATGGGCAAGTACCAATTTTGGCAGGGAGTGGAGAGGATGTTTAAGAGTAGGTGAGGGGGCGGTCC
*
26391 CTAGCCTCGTCGGAATTGTCGTCATCGTCAGGATCGTCGGTGGAGAGGTTGACACAGGAGAAACG
196 CTAGCCTCGTCGGAATTGTCGTCATCGTCAGGATCGTTGGTGGAGAGGTTGACACAGGAGAAACG
*
26456 CTCCAGGGATGAGAAGAATGCCGAGACCACAGTGGCGCTGACCCAGCCGGCGACCTCTCCCAACT
261 CTCCAGGGATGAGAAGAAGGCCGAGACCACAGTGGCGCTGACCCAGCCGGCGACCTCTCCCAACT
*
26521 TCTCGCGGCATCAAACATCTTTATACACTTTAAATTCGAGGAGAAACAAAAATAAATTTACTGTT
326 TCTCGCGGCATCAACCATCTTTATACACTTTAAA-TCGAGGAGAAACAAAAATAAATTTACTGTT
26586 AAAAGAATACGCGGAATTGAATCTTGAATGTAGTTTAGGTTACCTGAAGGATTTTGGTAAAAGGG
390 AAAAGAATACGCGGAATTGAATCTTGAATGTAGTTTAGGTTACCTGAAGGATTTTGGTAAAAGGG
* *
26651 ATATGAATTTATTTTCTTGGAATATAGCCGTTGGGAGACGTTGGTTGAATCACTATATCACTGTA
455 TTATGAATTTATTTTCTTGGAATATAGCCGTTGGGAGACGTTGGTTGAATCACTATATCACCGTA
*
26716 ATATGTTTGAAAGAATACGCTAACCTTTATCTGAAAAAATACTATACCACCGTAGTATATTTTTC
520 ATATGTTTGAAAGAATACGCTAACCTTTATCTGAAAAAATACTATACCACCGTAATATATTTTTC
26781 CCAGCATGCTTCTCTTTGACAACCGAGCAATCATGAAAAATAATAATAACAGTTGATTTAATTTA
585 CCAGCATGCTTCTCTTTGACAACCGAGCAATCATGAAAAATAATAATAACAGTTGATTTAATTTA
26846 GAAAATAAAAAAGGGAAAACAAGACACATTTTGTACTGAAATACAAAAAATAAAAACAATACAAT
650 GAAAATAAAAAAGGGAAAACAAGACACATTTTGTACTGAAATACAAAAAATAAAAACAATACAAT
26911 TTGGCATGAAAGTTTCTGGGATGGCTATAATATGGACAGCTGCTATATGTGGTGCAAAAGTCAAG
715 TTGGCATGAAAGTTTCTGGGATGGCTATAATATGGACAGCTGCTATATGTGGTGCAAAAGTCAAG
26976 AGGGCCTTATTAAAGCAGGCATGTCAAATAGAGACA
780 AGGGCCTTATTAAAGCAGGCATGTCAAATAGAGACA
*
27012 CGTTATTACATAACACATTCATTTTCAATAAGAAGCAGCAACAAATTTATAACATATAAAGTTCT
1 CGTTATTACATAACACATCCATTTTCAATAAGAAGCAGCAACAAATTTATAACATATAAAGTTCT
27077 CTTCTTTCTTTCTTTTTTTTCCTGTAAACAAGACACTAAATCAAGAAAGACAGAAAATATATGCC
66 CTTCTTTCTTTCTTTTTTTTCCTGTAAACAAGACACTAAATCAAGAAAGACAGAAAATATATGCC
*
27142 ATGGGCAAGTACCAATTTTTAGCAGGGAGTGGAGAGGATGTTTAAGAGTAGGTGAGGGGGCGGTC
131 ATGGGCAAGTACCAA-TTTTGGCAGGGAGTGGAGAGGATGTTTAAGAGTAGGTGAGGGGGCGGTC
*
27207 CCTAGCCTCATCGGAATTGTCGTCATCGTCAGGATCGTTGGTGGAGAGGTTGACACAGGAGAAAC
195 CCTAGCCTCGTCGGAATTGTCGTCATCGTCAGGATCGTTGGTGGAGAGGTTGACACAGGAGAAAC
* *
27272 GCTCCAGGGATGAGAAGAAGGCTGAGACCACAGTGGCGCTGACCCAGCCGGTGACCTCTCCCAAC
260 GCTCCAGGGATGAGAAGAAGGCCGAGACCACAGTGGCGCTGACCCAGCCGGCGACCTCTCCCAAC
27337 TTCTCGCGGCATCAACCATCTTTATACACTTTAAATCGAGGAGAAACAAAAATAAATTTACTGTT
325 TTCTCGCGGCATCAACCATCTTTATACACTTTAAATCGAGGAGAAACAAAAATAAATTTACTGTT
*
27402 AAAAGAATACGCGGAATTGAATCTTGAATGTAGTTTAGGTTACCTGAAGGATTTTGGTAAAAGAG
390 AAAAGAATACGCGGAATTGAATCTTGAATGTAGTTTAGGTTACCTGAAGGATTTTGGTAAAAGGG
*
27467 TTATGAATTTATTTTCTTGGAATATAGCCGTTGGGAGACGTTGGTTGAATCACTATATCACCGCA
455 TTATGAATTTATTTTCTTGGAATATAGCCGTTGGGAGACGTTGGTTGAATCACTATATCACCGTA
*
27532 ATATGTTTGAAAGAATACGCTAACCTTTATCTGAAAAAATATTATACCACCGTAATATATTTTTC
520 ATATGTTTGAAAGAATACGCTAACCTTTATCTGAAAAAATACTATACCACCGTAATATATTTTTC
* *
27597 CCTGCATGCTTCTCTTTGACAACAGAGCAATCATGAAAAATAATAATAACAGTTGATTTAATTTA
585 CCAGCATGCTTCTCTTTGACAACCGAGCAATCATGAAAAATAATAATAACAGTTGATTTAATTTA
* * * *
27662 GAAAATAAAAAAGTGAAAACAAGACACATTTCGTACTGAAAAACAAAAAATAAAAACAATACGAT
650 GAAAATAAAAAAGGGAAAACAAGACACATTTTGTACTGAAATACAAAAAATAAAAACAATACAAT
27727 TTGGCATGAAAGTTTCTGGGATGGCTATAATATGGACAGCTGCTATATGTGGTGCAAAAGTCAAG
715 TTGGCATGAAAGTTTCTGGGATGGCTATAATATGGACAGCTGCTATATGTGGTGCAAAAGTCAAG
27792 AGGGCCTTATTAAAGCAGGCATGTCAAATAGAGACA
780 AGGGCCTTATTAAAGCAGGCATGTCAAATAGAGACA
27828 CGTTATT
1 CGTTATT
27835 CAAACTAGGT
Statistics
Matches: 1582, Mismatches: 44, Indels: 15
0.96 0.03 0.01
Matches are distributed among these distances:
811 167 0.11
812 610 0.39
813 151 0.10
814 18 0.01
815 18 0.01
816 456 0.29
817 162 0.10
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (815 bp):
CGTTATTACATAACACATCCATTTTCAATAAGAAGCAGCAACAAATTTATAACATATAAAGTTCT
CTTCTTTCTTTCTTTTTTTTCCTGTAAACAAGACACTAAATCAAGAAAGACAGAAAATATATGCC
ATGGGCAAGTACCAATTTTGGCAGGGAGTGGAGAGGATGTTTAAGAGTAGGTGAGGGGGCGGTCC
CTAGCCTCGTCGGAATTGTCGTCATCGTCAGGATCGTTGGTGGAGAGGTTGACACAGGAGAAACG
CTCCAGGGATGAGAAGAAGGCCGAGACCACAGTGGCGCTGACCCAGCCGGCGACCTCTCCCAACT
TCTCGCGGCATCAACCATCTTTATACACTTTAAATCGAGGAGAAACAAAAATAAATTTACTGTTA
AAAGAATACGCGGAATTGAATCTTGAATGTAGTTTAGGTTACCTGAAGGATTTTGGTAAAAGGGT
TATGAATTTATTTTCTTGGAATATAGCCGTTGGGAGACGTTGGTTGAATCACTATATCACCGTAA
TATGTTTGAAAGAATACGCTAACCTTTATCTGAAAAAATACTATACCACCGTAATATATTTTTCC
CAGCATGCTTCTCTTTGACAACCGAGCAATCATGAAAAATAATAATAACAGTTGATTTAATTTAG
AAAATAAAAAAGGGAAAACAAGACACATTTTGTACTGAAATACAAAAAATAAAAACAATACAATT
TGGCATGAAAGTTTCTGGGATGGCTATAATATGGACAGCTGCTATATGTGGTGCAAAAGTCAAGA
GGGCCTTATTAAAGCAGGCATGTCAAATAGAGACA
Found at i:29191 original size:21 final size:21
Alignment explanation
Indices: 29167--29387 Score: 250
Period size: 21 Copynumber: 10.6 Consensus size: 21
29157 AAACTATATA
* *
29167 AATATATTAATTTAATTTAAG
1 AATAAATTAATATAATTTAAG
* *
29188 AATACACTAATATAATTTAAG
1 AATAAATTAATATAATTTAAG
* *
29209 AATAAATTAATTTAA-TTAAA
1 AATAAATTAATATAATTTAAG
*
29229 AATAAATTAATATAATTCAAG
1 AATAAATTAATATAATTTAAG
*
29250 AATAAATTAATATAATTCAAG
1 AATAAATTAATATAATTTAAG
* *
29271 AATACACTAATATAATTTAAG
1 AATAAATTAATATAATTTAAG
* *
29292 AATAAATTAATTTAA-TTAAA
1 AATAAATTAATATAATTTAAG
* *
29312 AATAAATTATTTTAATTTAAG
1 AATAAATTAATATAATTTAAG
*
29333 AATAAATTAATATAATTCT-TG
1 AATAAATTAATATAATT-TAAG
* *
29354 AATTATATTAATTTAATTTAAG
1 AA-TAAATTAATATAATTTAAG
29376 AATAAATTAATA
1 AATAAATTAATA
29388 CAACAAAATG
Statistics
Matches: 168, Mismatches: 27, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
20 36 0.21
21 115 0.68
22 17 0.10
ACGTcount: A:0.53, C:0.03, G:0.04, T:0.40
Consensus pattern (21 bp):
AATAAATTAATATAATTTAAG
Found at i:29232 original size:62 final size:63
Alignment explanation
Indices: 29166--29387 Score: 268
Period size: 62 Copynumber: 3.5 Consensus size: 63
29156 TAAACTATAT
* * * *
29166 AAATATATTAATTTAATTTAAGAATACACTAATATAATTTAAGAATAAATTAATTTAA-TTAA
1 AAATAAATTAATTTAATTTAAGAATAAATTAATATAATTTAAGAATAAATTAATATAATTTAA
* * * * *
29228 AAATAAATTAATATAATTCAAGAATAAATTAATATAATTCAAGAATACACTAATATAATTTAA
1 AAATAAATTAATTTAATTTAAGAATAAATTAATATAATTTAAGAATAAATTAATATAATTTAA
* * * * **
29291 GAATAAATTAATTTAA-TTAAAAATAAATTATTTTAATTTAAGAATAAATTAATATAATTCTTG
1 AAATAAATTAATTTAATTTAAGAATAAATTAATATAATTTAAGAATAAATTAATATAATT-TAA
* *
29354 AATTATATTAATTTAATTTAAGAATAAATTAATA
1 AAATAAATTAATTTAATTTAAGAATAAATTAATA
29388 CAACAAAATG
Statistics
Matches: 131, Mismatches: 26, Indels: 4
0.81 0.16 0.02
Matches are distributed among these distances:
62 85 0.65
63 32 0.24
64 14 0.11
ACGTcount: A:0.54, C:0.03, G:0.04, T:0.40
Consensus pattern (63 bp):
AAATAAATTAATTTAATTTAAGAATAAATTAATATAATTTAAGAATAAATTAATATAATTTAA
Found at i:29272 original size:83 final size:83
Alignment explanation
Indices: 29167--29386 Score: 332
Period size: 83 Copynumber: 2.6 Consensus size: 83
29157 AAACTATATA
* * *
29167 AATATATTAATTTAATTTAAGAATACACTAATATAATTTAAGAATAAATTAATTTAATTAAAAAT
1 AATAAATTAATATAATTCAAGAATACACTAATATAATTTAAGAATAAATTAATTTAATTAAAAAT
29232 AAATTAATATAATTCAAG
66 AAATTAATATAATTCAAG
29250 AATAAATTAATATAATTCAAGAATACACTAATATAATTTAAGAATAAATTAATTTAATTAAAAAT
1 AATAAATTAATATAATTCAAGAATACACTAATATAATTTAAGAATAAATTAATTTAATTAAAAAT
* * *
29315 AAATTATTTTAATTTAAG
66 AAATTAATATAATTCAAG
** * * *
29333 AATAAATTAATATAATTCTTGAATTATATTAATTTAATTTAAGAATAAATTAAT
1 AATAAATTAATATAATTCAAGAA-TACACTAATATAATTTAAGAATAAATTAAT
29387 ACAACAAAAT
Statistics
Matches: 125, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
83 98 0.78
84 27 0.22
ACGTcount: A:0.53, C:0.03, G:0.04, T:0.40
Consensus pattern (83 bp):
AATAAATTAATATAATTCAAGAATACACTAATATAATTTAAGAATAAATTAATTTAATTAAAAAT
AAATTAATATAATTCAAG
Found at i:31376 original size:21 final size:21
Alignment explanation
Indices: 31350--31396 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
31340 TACTGTTAAA
31350 AGAATACGCGGAATTGAATCT
1 AGAATACGCGGAATTGAATCT
31371 AGAATACGCGGAATTGAATCT
1 AGAATACGCGGAATTGAATCT
*
31392 TGAAT
1 AGAAT
31397 TTAGTTTAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.26
Consensus pattern (21 bp):
AGAATACGCGGAATTGAATCT
Found at i:38588 original size:82 final size:82
Alignment explanation
Indices: 38436--38595 Score: 266
Period size: 82 Copynumber: 2.0 Consensus size: 82
38426 GCTTTTATTT
* * * *
38436 TGGATCTTACTTTGAATTCGATTTTGTTCGTTTAACTATATATCTATATCTATCTCTCTCTCTCT
1 TGGATCTTACTTTGAATTCGATTTTGTTCGTTTAACTATATATCTATATCTATCTCTATATATAT
*
38501 CTATATATATATATAGA
66 ATATATATATATATAGA
*
38518 TGGATCTTACTTTGAATTCGATTTTGTTCGTTTAACTATATATCTATATCTATCTGTATATATAT
1 TGGATCTTACTTTGAATTCGATTTTGTTCGTTTAACTATATATCTATATCTATCTCTATATATAT
38583 ATATATATATATA
66 ATATATATATATA
38596 GAGAGATATA
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
82 72 1.00
ACGTcount: A:0.28, C:0.14, G:0.09, T:0.49
Consensus pattern (82 bp):
TGGATCTTACTTTGAATTCGATTTTGTTCGTTTAACTATATATCTATATCTATCTCTATATATAT
ATATATATATATATAGA
Found at i:38604 original size:18 final size:18
Alignment explanation
Indices: 38583--38617 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
38573 GTATATATAT
* *
38583 ATATATATATATAGAGAG
1 ATATAGATAGATAGAGAG
38601 ATATAGATAGATAGAGA
1 ATATAGATAGATAGAGA
38618 TATTCGGTAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.00, G:0.20, T:0.29
Consensus pattern (18 bp):
ATATAGATAGATAGAGAG
Found at i:57557 original size:18 final size:18
Alignment explanation
Indices: 57531--57572 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
57521 TTTTAATTTT
* *
57531 TATAATTATAATATAAAA
1 TATATTTATAAAATAAAA
57549 TATATTTATAAAATAAAA
1 TATATTTATAAAATAAAA
57567 TGATAT
1 T-ATAT
57573 ACAACAACTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (18 bp):
TATATTTATAAAATAAAA
Found at i:63541 original size:35 final size:35
Alignment explanation
Indices: 63500--63574 Score: 116
Period size: 35 Copynumber: 2.1 Consensus size: 35
63490 TTCATGTTCA
63500 AAATTCCAAAACACTTCAATTACATTCTAAAC-CT
1 AAATTCCAAAACACTTCAATTACATTCTAAACTCT
* *
63534 CAAATTCCAAAATACTTTAATTACATTCTAAACTCT
1 -AAATTCCAAAACACTTCAATTACATTCTAAACTCT
63570 AAATT
1 AAATT
63575 AAAGTATTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
35 35 0.95
36 2 0.05
ACGTcount: A:0.44, C:0.23, G:0.00, T:0.33
Consensus pattern (35 bp):
AAATTCCAAAACACTTCAATTACATTCTAAACTCT
Found at i:63618 original size:35 final size:35
Alignment explanation
Indices: 63570--63647 Score: 104
Period size: 35 Copynumber: 2.2 Consensus size: 35
63560 TCTAAACTCT
* * *
63570 AAATTAAAGTATTTTAAAATTTGGGGTTTAGAAT-
1 AAATTGAATTATTTTAAAATTTAGGGTTTAGAATG
*
63604 ATAATTGAATTATTTTGAAATTTAGGGTTTAGAATG
1 A-AATTGAATTATTTTAAAATTTAGGGTTTAGAATG
63640 AAATTGAA
1 AAATTGAA
63648 GATTGTGTTG
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
34 1 0.03
35 36 0.95
36 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (35 bp):
AAATTGAATTATTTTAAAATTTAGGGTTTAGAATG
Found at i:73139 original size:16 final size:15
Alignment explanation
Indices: 73099--73136 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
73089 CGTTTATTTA
73099 ATAAATAA-ACGAAC
1 ATAAATAACACGAAC
*
73113 ATAAACGAACACGAAC
1 ATAAA-TAACACGAAC
73129 ATAAATAA
1 ATAAATAA
73137 ACAAAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
14 5 0.25
15 4 0.20
16 11 0.55
ACGTcount: A:0.63, C:0.16, G:0.08, T:0.13
Consensus pattern (15 bp):
ATAAATAACACGAAC
Found at i:73222 original size:14 final size:14
Alignment explanation
Indices: 73203--73242 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
73193 TTTAAATGAT
73203 AACGAACACAAATG
1 AACGAACACAAATG
* *
73217 AACGAACATAAACG
1 AACGAACACAAATG
73231 AAC-AACACAAAT
1 AACGAACACAAAT
73243 ACAAAAAACA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 7 0.32
14 15 0.68
ACGTcount: A:0.60, C:0.23, G:0.10, T:0.07
Consensus pattern (14 bp):
AACGAACACAAATG
Found at i:74061 original size:13 final size:14
Alignment explanation
Indices: 74042--74074 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
74032 AGTATTTTGA
74042 ATAAATTAAATATT
1 ATAAATTAAATATT
*
74056 -TAAATTATATATT
1 ATAAATTAAATATT
74069 ATAAAT
1 ATAAAT
74075 GGAGAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATAAATTAAATATT
Found at i:75237 original size:11 final size:11
Alignment explanation
Indices: 75221--75289 Score: 50
Period size: 11 Copynumber: 6.2 Consensus size: 11
75211 CAACTTCATC
75221 AAATTATTATA
1 AAATTATTATA
*
75232 AAATTATCATTAA
1 AAATTATTA-T-A
* *
75245 AAACTGTTATA
1 AAATTATTATA
* *
75256 AAATAATTATT
1 AAATTATTATA
*
75267 AAATT-TTATC
1 AAATTATTATA
*
75277 AATTTATTATA
1 AAATTATTATA
75288 AA
1 AA
75290 TGATCAATAA
Statistics
Matches: 43, Mismatches: 12, Indels: 6
0.70 0.20 0.10
Matches are distributed among these distances:
10 8 0.19
11 26 0.60
12 2 0.05
13 7 0.16
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.43
Consensus pattern (11 bp):
AAATTATTATA
Found at i:75462 original size:18 final size:18
Alignment explanation
Indices: 75435--75477 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
75425 TATTCGATTT
75435 ATTGACTGATTAATTTGG
1 ATTGACTGATTAATTTGG
*
75453 ATTGATTGATTAATTTGG
1 ATTGACTGATTAATTTGG
75471 ATTGACT
1 ATTGACT
75478 ATTGCATACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.28, C:0.05, G:0.21, T:0.47
Consensus pattern (18 bp):
ATTGACTGATTAATTTGG
Found at i:78034 original size:4 final size:4
Alignment explanation
Indices: 78027--78053 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
78017 ACAAATATAG
78027 ATGT ATGT ATGT ATGT ATGT ATGT ATG
1 ATGT ATGT ATGT ATGT ATGT ATGT ATG
78054 CTACACTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (4 bp):
ATGT
Found at i:79175 original size:6 final size:6
Alignment explanation
Indices: 79113--79165 Score: 106
Period size: 6 Copynumber: 8.8 Consensus size: 6
79103 TCGACAAAGA
79113 AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG
1 AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG
79161 AGAAG
1 AGAAG
79166 AAGGAGAAGG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (6 bp):
AGAAGG
Done.