Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008194.1 Hibiscus syriacus cultivar Beakdansim tig00110813_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: 2426039
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 13
Found at i:392460 original size:10 final size:9
Alignment explanation
Indices: 392444--392508 Score: 58
Period size: 10 Copynumber: 6.8 Consensus size: 9
392434 TAGTTTGTGA
392444 TATTTTTTT
1 TATTTTTTT
*
392453 TAATTTTTTAA
1 T-ATTTTTT-T
*
392464 TATTATTTT
1 TATTTTTTT
392473 TATTATTTTT
1 TATT-TTTTT
* *
392483 AATTTTTTA
1 TATTTTTTT
392492 TATTTTTATT
1 TATTTTT-TT
392502 TATTTTT
1 TATTTTT
392509 ATTTTTTAAT
Statistics
Matches: 44, Mismatches: 8, Indels: 7
0.75 0.14 0.12
Matches are distributed among these distances:
9 15 0.34
10 28 0.64
11 1 0.02
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (9 bp):
TATTTTTTT
Found at i:392461 original size:9 final size:9
Alignment explanation
Indices: 392447--392560 Score: 53
Period size: 9 Copynumber: 13.0 Consensus size: 9
392437 TTTGTGATAT
392447 TTTTTTTAA
1 TTTTTTTAA
392456 -TTTTTTAA
1 TTTTTTTAA
*
392464 TATTATTTTTA
1 T-TT-TTTTAA
392475 TTATTTTTAA
1 TT-TTTTTAA
392485 -TTTTTT-A
1 TTTTTTTAA
*
392492 TATTTTT-A
1 TTTTTTTAA
*
392500 TTTATTTTTA
1 TTT-TTTTAA
392510 -TTTTTTAA
1 TTTTTTTAA
* *
392518 TATTTTAAA
1 TTTTTTTAA
***
392527 TTTAAATAA
1 TTTTTTTAA
392536 --TTTTTAA
1 TTTTTTTAA
*
392543 TATTTTTAA
1 TTTTTTTAA
*
392552 TATTTTTAA
1 TTTTTTTAA
392561 AATAAAATGA
Statistics
Matches: 80, Mismatches: 15, Indels: 20
0.70 0.13 0.17
Matches are distributed among these distances:
7 5 0.06
8 26 0.32
9 33 0.41
10 9 0.11
11 7 0.09
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:392489 original size:16 final size:17
Alignment explanation
Indices: 392467--392559 Score: 95
Period size: 17 Copynumber: 5.5 Consensus size: 17
392457 TTTTTAATAT
392467 TATTTTTATTATTTTTAA
1 TATTTTTA-TATTTTTAA
*
392485 T-TTTTTATATTTTTATT
1 TATTTTTATATTTTTA-A
392502 TATTTTTAT-TTTTTAA
1 TATTTTTATATTTTTAA
* *
392518 TA-TTTTA-AATTTAAA
1 TATTTTTATATTTTTAA
392533 TAATTTTTAATATTTTTAA
1 T-ATTTTT-ATATTTTTAA
392552 TATTTTTA
1 TATTTTTA
392560 AAATAAAATG
Statistics
Matches: 62, Mismatches: 6, Indels: 15
0.75 0.07 0.18
Matches are distributed among these distances:
15 11 0.18
16 11 0.18
17 18 0.29
18 15 0.24
19 7 0.11
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
TATTTTTATATTTTTAA
Found at i:392501 original size:25 final size:25
Alignment explanation
Indices: 392444--392560 Score: 96
Period size: 25 Copynumber: 4.5 Consensus size: 25
392434 TAGTTTGTGA
*
392444 TATTTTTTTTAATTTTTTAATATTATTTT
1 TATTATTTTTAA-TTTTT--TA-TATTTT
392473 TATTATTTTTAATTTTTTATATTTT
1 TATTATTTTTAATTTTTTATATTTT
392498 TATTTATTTTT-ATTTTTTA-ATATTT
1 TA-TTATTTTTAATTTTTTATAT-TTT
* * *
392523 TA-AATTTAAATAATTTTTAATATTTT
1 TATTATTT--TTAATTTTTTATATTTT
*
392549 TAATATTTTTAA
1 TATTATTTTTAA
392561 AATAAAATGA
Statistics
Matches: 75, Mismatches: 6, Indels: 18
0.76 0.06 0.18
Matches are distributed among these distances:
23 4 0.05
24 2 0.03
25 25 0.33
26 22 0.29
27 6 0.08
28 5 0.07
29 11 0.15
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (25 bp):
TATTATTTTTAATTTTTTATATTTT
Found at i:395961 original size:32 final size:32
Alignment explanation
Indices: 395924--396005 Score: 148
Period size: 32 Copynumber: 2.6 Consensus size: 32
395914 AAAAGAAACA
395924 ACAACAAAAGAAAATACATGGGTGGGAATCCT
1 ACAACAAAAGAAAATACATGGGTGGGAATCCT
*
395956 ACAACAAAAGAAAATACAAGGGTGGGAATCCT
1 ACAACAAAAGAAAATACATGGGTGGGAATCCT
395988 ACAACAAAAGAAAA-ACAT
1 ACAACAAAAGAAAATACAT
396006 TGTAAGAAAG
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
31 3 0.06
32 45 0.94
ACGTcount: A:0.54, C:0.16, G:0.18, T:0.12
Consensus pattern (32 bp):
ACAACAAAAGAAAATACATGGGTGGGAATCCT
Found at i:404840 original size:11 final size:11
Alignment explanation
Indices: 404824--404848 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
404814 TAATATATAG
404824 TTTTGAAAACA
1 TTTTGAAAACA
404835 TTTTGAAAACA
1 TTTTGAAAACA
404846 TTT
1 TTT
404849 ATATATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (11 bp):
TTTTGAAAACA
Found at i:404924 original size:37 final size:37
Alignment explanation
Indices: 404738--405180 Score: 410
Period size: 37 Copynumber: 12.3 Consensus size: 37
404728 TTTTGACAAA
* * *
404738 ATATAATATATAATTTTCAGAAAATAATTTTTGAAAATTT
1 ATATAATATATAGTTTT-A-AAAA-CATTTTTGAAAAATT
* * **
404778 ATATATTATATAATTTTTGAAA-ATATTTTG--AAA--
1 ATATAATATATAGTTTTAAAAACAT-TTTTGAAAAATT
*
404811 ATATAATATATAGTTTTGAAAACA-TTTTGAAAACATTT
1 ATATAATATATAGTTTTAAAAACATTTTTGAAAA-A-TT
* * * *
404849 ATATATTGTATAGTTTTTAAAACA-TTTTGAAAACTT
1 ATATAATATATAGTTTTAAAAACATTTTTGAAAAATT
* *
404885 ATATAGTATATAGTTTTTAAAACATTTTTGAAAAATT
1 ATATAATATATAGTTTTAAAAACATTTTTGAAAAATT
*
404922 ATATAATATATAGTTTTAAAAATATTTTTGAAAAA-T
1 ATATAATATATAGTTTTAAAAACATTTTTGAAAAATT
*
404958 ATATAATATATAGTTTAAAAAACATTTTTTGAAAAATT
1 ATATAATATATAGTTTTAAAAACA-TTTTTGAAAAATT
404996 ATATAATATATAGTTTTAAAAACATTTTTGAAAAATT
1 ATATAATATATAGTTTTAAAAACATTTTTGAAAAATT
* **
405033 ATATAATATATAGTTTTAAAAACGTTTTTTGAAACCTT
1 ATATAATATATAGTTTTAAAAAC-ATTTTTGAAAAATT
*
405071 ATAT-A-ATAT--TTTT-AAAACA-TTTTG-AAAACT
1 ATATAATATATAGTTTTAAAAACATTTTTGAAAAATT
*
405101 ATATAATATATAGTTTTGAAAAC-TTTTT---AAA--
1 ATATAATATATAGTTTTAAAAACATTTTTGAAAAATT
* * *
405132 ATATAATATATAG-TCTAAAATATATATTTTGAAATA-T
1 ATATAATATATAGTTTTAAAA-ACAT-TTTTGAAAAATT
*
405169 ATATATTATATA
1 ATATAATATATA
405181 AATTATATTT
Statistics
Matches: 345, Mismatches: 33, Indels: 53
0.80 0.08 0.12
Matches are distributed among these distances:
30 12 0.03
31 20 0.06
32 10 0.03
33 30 0.09
34 11 0.03
35 12 0.03
36 55 0.16
37 107 0.31
38 72 0.21
40 16 0.05
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.45
Consensus pattern (37 bp):
ATATAATATATAGTTTTAAAAACATTTTTGAAAAATT
Found at i:405135 original size:24 final size:24
Alignment explanation
Indices: 405090--405136 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
405080 TTTTAAAACA
*
405090 TTTTGAAAACTATATAATATATAG
1 TTTTGAAAACTATATAAAATATAG
* *
405114 TTTTGAAAACTTTTTAAAATATA
1 TTTTGAAAACTATATAAAATATA
405137 ATATATAGTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (24 bp):
TTTTGAAAACTATATAAAATATAG
Found at i:406498 original size:2 final size:2
Alignment explanation
Indices: 406473--406516 Score: 53
Period size: 2 Copynumber: 24.5 Consensus size: 2
406463 CCATTTATTT
406473 TA TA T- TA T- TA T- TA TA T- TA -A 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 TA TA
406510 TA TA TA T
1 TA TA TA T
406517 CTTTTTCTTC
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
1 5 0.14
2 32 0.86
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:410069 original size:95 final size:95
Alignment explanation
Indices: 409960--410148 Score: 256
Period size: 95 Copynumber: 2.0 Consensus size: 95
409950 TAATATTATG
** * * * *
409960 TATACAATAAAGCTTGATTTGTTCCTCTAGAT-CAATTGGTTAAACTCCCCGGCTTTATGGCTAA
1 TATACAATAAAGCTTGAGCTGTCCCTCTA-ATGCAATTGGTTAAACGCCCCAGCTTTATGGATAA
* *
410024 TA-TCTAGCTAGCCTGATAAAGGTGATTATAA
65 GATTC-AGCTAACCTGATAAAGGTGATTATAA
*
410055 TATACAATAAAGCTTGAGCTGTCCCTCTAATGCAATTGGTTAAACGCCTCAGCTTTATGGATAAG
1 TATACAATAAAGCTTGAGCTGTCCCTCTAATGCAATTGGTTAAACGCCCCAGCTTTATGGATAAG
*
410120 ATTCAGCTAACCTGATAAAGGTGTTTATA
66 ATTCAGCTAACCTGATAAAGGTGATTATA
410149 TATTAAGTTG
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
94 2 0.02
95 78 0.95
96 2 0.02
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.33
Consensus pattern (95 bp):
TATACAATAAAGCTTGAGCTGTCCCTCTAATGCAATTGGTTAAACGCCCCAGCTTTATGGATAAG
ATTCAGCTAACCTGATAAAGGTGATTATAA
Found at i:411447 original size:84 final size:83
Alignment explanation
Indices: 411306--411881 Score: 568
Period size: 84 Copynumber: 6.9 Consensus size: 83
411296 AATTTTTTCT
** * * * *
411306 ATTTGCAACATAGCTCAAGGCAAGAAGGGCTATTTGCCAACAAAAGACCTTTGAGTTCGATTACG
1 ATTTGCAGTATAGCTCAAGGCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGATTACG
411371 CTCAGCTCAATGGCACATC
66 CTCAGCTCAA-GGCACATC
* * * * * *
411390 ATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATATGCAAACCAAAGACCCTCGAGTTCGATTACA
1 ATTTGCAGTATAGCTCAAGGCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGATTACG
*
411455 CTCAGCATCGAGGGCACATC
66 CTCAGC-TC-AAGGCACATC
* * * * * *
411475 ATTTGCAGTATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGTATAGCTCAAGGCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGATTACG
*
411540 CTCAGCTCCAAGGCATATC
66 CTCAGCT-CAAGGCACATC
* * * * * ** *
411559 ATTTACAATATAGCTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTATAGTTCGACTACG
1 ATTTGCAGTATAGCTCAAGGCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGATTACG
*
411624 CTCAGCTCCAAGTCACATC
66 CTCAGCT-CAAGGCACATC
* * * * * * * *
411643 ATTCGTAGCATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAAGACCTTTGAGTTCGACTATG
1 ATTTGCAGTATAGCTCAAGGCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGATTACG
411704 CTCAGCTTCAAGGGCACATC
66 CTCAGC-TCAA-GGCACATC
* * * * * ** *
411724 ATTTACAATATAACTCAAGGCTAGAAGGGTTATCTATC-ACCAAAAGACCTTCGAGTTTGATTAC
1 ATTTGCAGTATAGCTCAAGGCGAGAAGGGCTATCTGCCAACC-AAAGACCTTCGAGTTCGATTAC
411788 GCTCAGCTCCAAGGCACATC
65 GCTCAGCT-CAAGGCACATC
* * * * * * *
411808 ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTACCAACCGAAGACCTTCGAGTTCGATTACA
1 ATTTGCAGTATAGCTCAAGGCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGATTACG
411873 CTCAGCTCA
66 CTCAGCTCA
411882 TAGACAAACC
Statistics
Matches: 408, Mismatches: 73, Indels: 23
0.81 0.14 0.05
Matches are distributed among these distances:
80 30 0.07
81 33 0.08
83 2 0.00
84 241 0.59
85 101 0.25
86 1 0.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (83 bp):
ATTTGCAGTATAGCTCAAGGCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGATTACG
CTCAGCTCAAGGCACATC
Found at i:411587 original size:169 final size:168
Alignment explanation
Indices: 411306--411880 Score: 644
Period size: 169 Copynumber: 3.4 Consensus size: 168
411296 AATTTTTTCT
* * * *
411306 ATTTGCAACATAGCTCAAGGCAAGAAGGGCTATTTGCCAACAAAAGACCTTTGAGTTCGATTACG
1 ATTTGCAGCATAGCTCAAGGCGAGAAGGGCTATCTGCCAACAAAAGACCTTTGAGTTCGACTACG
* * * * * *
411371 CTCAGCT-CAATGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATATGCAAACCAAA
66 CTCAGCTCCAAGGGCACATCATTTACAATATAGCTCAAGGCTAGAAGGG-TATATGCAAACCAAA
* * * *
411435 GACCCTCGAGTTCGATTACACTCAGCATCGAGGGCACATC
130 GACCTTCGAGTTCGATTACGCTCAGC-TCCAAGGCACATC
* * * *
411475 ATTTGCAGTATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAGCTCAAGGCGAGAAGGGCTATCTGCCAACAAAAGACCTTTGAGTTCGACTACG
* * * *
411540 CTCAGCTCCAA-GGCATATCATTTACAATATAGCTCAAGGCTAGAAGGGTTATCTGCCAACAAAA
66 CTCAGCTCCAAGGGCACATCATTTACAATATAGCTCAAGGCTAGAAGGG-TATATGCAAACCAAA
** * *
411604 GACCTTATAGTTCGACTACGCTCAGCTCCAAGTCACATC
130 GACCTTCGAGTTCGATTACGCTCAGCTCCAAGGCACATC
* * * * *
411643 ATTCGTAGCATAGCTTAAGTCGAGAAGGGCTATCTG-C--C-AAAGACCTTTGAGTTCGACTATG
1 ATTTGCAGCATAGCTCAAGGCGAGAAGGGCTATCTGCCAACAAAAGACCTTTGAGTTCGACTACG
* * *
411704 CTCAGCTTCAAGGGCACATCATTTACAATATAACTCAAGGCTAGAAGGGT-TAT-CTATCACCAA
66 CTCAGCTCCAAGGGCACATCATTTACAATATAGCTCAAGGCTAGAAGGGTATATGC-A-AACC-A
*
411767 AAGACCTTCGAGTTTGATTACGCTCAGCTCCAAGGCACATC
128 AAGACCTTCGAGTTCGATTACGCTCAGCTCCAAGGCACATC
* * * * ** * * *
411808 ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTACCAACCGAAGACCTTCGAGTTCGATTACA
1 ATTTGCAGCATAGCTCAAGGCGAGAAGGGCTATCTGCCAACAAAAGACCTTTGAGTTCGACTACG
411873 CTCAGCTC
66 CTCAGCTC
411881 ATAGACAAAC
Statistics
Matches: 341, Mismatches: 56, Indels: 18
0.82 0.13 0.04
Matches are distributed among these distances:
162 1 0.00
163 2 0.01
164 35 0.10
165 105 0.31
166 1 0.00
167 1 0.00
168 39 0.11
169 154 0.45
170 3 0.01
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (168 bp):
ATTTGCAGCATAGCTCAAGGCGAGAAGGGCTATCTGCCAACAAAAGACCTTTGAGTTCGACTACG
CTCAGCTCCAAGGGCACATCATTTACAATATAGCTCAAGGCTAGAAGGGTATATGCAAACCAAAG
ACCTTCGAGTTCGATTACGCTCAGCTCCAAGGCACATC
Found at i:411750 original size:165 final size:164
Alignment explanation
Indices: 411348--411879 Score: 616
Period size: 165 Copynumber: 3.2 Consensus size: 164
411338 TTTGCCAACA
* * * * * *
411348 AAAGACCTTTGAGTTCGATTACGCTCAGC-TCAATGGCACATCATTTGCAGTATAGCTTAAGTCG
1 AAAGACCTTTGAGTTCGACTACGCTCAGCTTCAA-GGCACATCATTTACAATATAGCTCAAGGCT
* * * * * * * *
411412 AGAAGGGCTATATGCAAACCAAAGACCCTCGAGTTCGATTACACTCAGCATCGAGGGCACATCAT
65 AGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACGCTCAGC-TCCAAGGCACATCAT
* * * * *
411477 TTGCAGTATAACTCAAGGCTAGAAGGGTTATCTGCCAAC
129 TTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTG-C--C
* *
411516 AAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTACAATATAGCTCAAGGCT
1 -AAAGACCTTTGAGTTCGACTACGCTCAGCTTCAAGGCACATCATTTACAATATAGCTCAAGGCT
** * *
411581 AGAAGGGTTATCTGCCAACAAAAGACCTTATAGTTCGACTACGCTCAGCTCCAAGTCACATCATT
65 AGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACGCTCAGCTCCAAGGCACATCATT
* * *
411646 CGTAGCATAGCTTAAGTCGAGAAGGGCTATCTGCC
130 TGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCC
* *
411681 AAAGACCTTTGAGTTCGACTATGCTCAGCTTCAAGGGCACATCATTTACAATATAACTCAAGGCT
1 AAAGACCTTTGAGTTCGACTACGCTCAGCTTCAA-GGCACATCATTTACAATATAGCTCAAGGCT
** * *
411746 AGAAGGGTTATCTATCACCAAAAGACCTTCGAGTTTGATTACGCTCAGCTCCAAGGCACATCATT
65 AGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACGCTCAGCTCCAAGGCACATCATT
*
411811 TGCAGCATAGCTTAAGTCGAGAAGGGTTATCTACC
130 TGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCC
* * *
411846 AACCGAAGACCTTCGAGTTCGATTACACTCAGCT
1 -A---AAGACCTTTGAGTTCGACTACGCTCAGCT
411880 CATAGACAAA
Statistics
Matches: 309, Mismatches: 48, Indels: 12
0.84 0.13 0.03
Matches are distributed among these distances:
164 32 0.10
165 117 0.38
166 1 0.00
167 1 0.00
168 38 0.12
169 117 0.38
170 3 0.01
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (164 bp):
AAAGACCTTTGAGTTCGACTACGCTCAGCTTCAAGGCACATCATTTACAATATAGCTCAAGGCTA
GAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACGCTCAGCTCCAAGGCACATCATTT
GCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCC
Found at i:411803 original size:249 final size:250
Alignment explanation
Indices: 411306--411880 Score: 751
Period size: 249 Copynumber: 2.3 Consensus size: 250
411296 AATTTTTTCT
* *
411306 ATTTGCAACATAGCTCAAGGCAAGAAGGGCTATTTGCCAACAAAAGACCTTTGAGTTCGATTACG
1 ATTTGCAACATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTT-AGTTCGATTACG
* *
411371 CTCAGCT-CAATGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATATGCAAACCAAA
65 CTCAGCTCCAATGGCACATCATTCGCAGCATAGCTTAAGTCGAGAAGGGCTATATG---ACCAAA
* * * *
411435 GACCCTCGAGTTCGATTACACTCAGCATCGAGGGCACATCATTTGCAGTATAACTCAAGGCTAGA
127 GACCCTCGAGTTCGACTACACTCAGCATCAAGGGCACATCATTTACAATATAACTCAAGGCTAGA
* * *
411500 AGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCATATC
192 AGGGTTATCTACCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * * *
411559 ATTTACAATATAGCTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTATAGTTCGACTACG
1 ATTTGCAACATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTT-TAGTTCGATTACG
* * *
411624 CTCAGCTCCAA-GTCACATCATTCGTAGCATAGCTTAAGTCGAGAAGGGCTATCTG-CCAAAGAC
65 CTCAGCTCCAATGGCACATCATTCGCAGCATAGCTTAAGTCGAGAAGGGCTATATGACCAAAGAC
* * ** *
411687 CTTTGAGTTCGACTATGCTCAGCTTCAAGGGCACATCATTTACAATATAACTCAAGGCTAGAAGG
130 CCTCGAGTTCGACTACACTCAGCATCAAGGGCACATCATTTACAATATAACTCAAGGCTAGAAGG
* * * *
411752 GTTATCTATCACCAAAAGACCTTCGAGTTTGATTACGCTCAGCTCCAAGGCACATC
195 GTTATCTACCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * * * * ** * *
411808 ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTACCAACCGAAGACCTTCGAGTTCGATTACA
1 ATTTGCAACATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTT-TAGTTCGATTACG
411873 CTCAGCTC
65 CTCAGCTC
411881 ATAGACAAAC
Statistics
Matches: 280, Mismatches: 40, Indels: 8
0.85 0.12 0.02
Matches are distributed among these distances:
249 173 0.62
253 103 0.37
254 4 0.01
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (250 bp):
ATTTGCAACATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTTAGTTCGATTACGC
TCAGCTCCAATGGCACATCATTCGCAGCATAGCTTAAGTCGAGAAGGGCTATATGACCAAAGACC
CTCGAGTTCGACTACACTCAGCATCAAGGGCACATCATTTACAATATAACTCAAGGCTAGAAGGG
TTATCTACCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
Found at i:412489 original size:2 final size:2
Alignment explanation
Indices: 412482--412538 Score: 78
Period size: 2 Copynumber: 28.5 Consensus size: 2
412472 GTTATTTTGT
* * *
412482 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TT TA TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
412524 TA TA TA TA TG TA TA T
1 TA TA TA TA TA TA TA T
412539 GGTAATATAG
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (2 bp):
TA
Found at i:412654 original size:38 final size:35
Alignment explanation
Indices: 412543--412994 Score: 318
Period size: 37 Copynumber: 13.0 Consensus size: 35
412533 GTATATGGTA
** *
412543 ATATAGTTTGTGAAAATGTTTTTGACAAA-ATATAAT
1 ATATAGTTT-TGAAAACATTTTT-AAAAATATATAAT
* * * *
412579 ATATAATTTTCAGAAAACGATTTTCGAAAATTTATATATT
1 ATATAGTTTT--GAAAAC-ATTTT-TAAAA-ATATATAAT
*
412619 ATATAGTTTTTGAAAATATTTTT--AAA-ATATAAT
1 ATATAG-TTTTGAAAACATTTTTAAAAATATATAAT
412652 ATATAGTTTTGAAAACA--TTT----ATATAT--T
1 ATATAGTTTTGAAAACATTTTTAAAAATATATAAT
* * * *
412679 TTATAGTTTTTAAAACATTTTGAAAACATATATAGT
1 ATATAGTTTTGAAAACATTTTTAAAA-ATATATAAT
*
412715 ATATAGTTTTTAAAACATTTTTGAAAAATTATATAAT
1 ATATAGTTTTGAAAACATTTTT-AAAAA-TATATAAT
* *
412752 ATATAGTTTTAAAAATATTTTTGAAAAATTATATAAT
1 ATATAGTTTTGAAAACATTTTT-AAAAA-TATATAAT
** * *
412789 ATATAGTTTAAAAAACATTTTTTGAAATATTATGTAAT
1 ATATAGTTTTGAAAACA-TTTTT-AAA-AATATATAAT
*
412827 ATATAGTTTTAAAAACATTTTTGAAAAAATATATAAT
1 ATATAGTTTTGAAAACATTTTT--AAAAATATATAAT
* *
412864 ATATAGTTTTAAAAACATTTTTTGAAAACT-TAT-AT
1 ATATAGTTTTGAAAACA-TTTTT-AAAAATATATAAT
* * *
412899 A-ATA-TTTTTAAAACATTTTGAAAACTATATAAT
1 ATATAGTTTTGAAAACATTTTTAAAAATATATAAT
412932 ATATAGTTTTGAAAAC-TTTTT--AAA-ATATAAT
1 ATATAGTTTTGAAAACATTTTTAAAAATATATAAT
* * *
412963 ATATAG-TTTAAAAATATTTTT-GAAATATATAA
1 ATATAGTTTTGAAAACATTTTTAAAAATATATAA
412995 ATTATATTTA
Statistics
Matches: 348, Mismatches: 38, Indels: 63
0.78 0.08 0.14
Matches are distributed among these distances:
27 16 0.05
28 1 0.00
29 6 0.02
30 10 0.03
31 24 0.07
32 22 0.06
33 31 0.09
34 16 0.05
35 15 0.04
36 33 0.09
37 101 0.29
38 52 0.15
39 6 0.02
40 11 0.03
41 4 0.01
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.44
Consensus pattern (35 bp):
ATATAGTTTTGAAAACATTTTTAAAAATATATAAT
Found at i:412675 original size:27 final size:27
Alignment explanation
Indices: 412608--412698 Score: 92
Period size: 27 Copynumber: 3.1 Consensus size: 27
412598 ATTTTCGAAA
*
412608 ATTTATATATTATATAGTTTTTGAAAAT
1 ATTTATATATTATATAG-TTTTGAAAAC
*
412636 ATTTTTAAAATATAATATATAGTTTTGAAAAC
1 A--TTT---ATATATTATATAGTTTTGAAAAC
* *
412668 ATTTATATATTTTATAGTTTTTAAAAC
1 ATTTATATATTATATAGTTTTGAAAAC
412695 ATTT
1 ATTT
412699 TGAAAACATA
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
27 24 0.45
28 1 0.02
30 6 0.11
32 10 0.19
33 12 0.23
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (27 bp):
ATTTATATATTATATAGTTTTGAAAAC
Found at i:412677 original size:60 final size:63
Alignment explanation
Indices: 412608--412947 Score: 206
Period size: 75 Copynumber: 5.0 Consensus size: 63
412598 ATTTTCGAAA
* *
412608 ATTTATATATTATATAGTTTTTGAAAATATTTT-TAAA-ATATA-A-TATATAGTTTTGAAAAC
1 ATTTATATATTATATAGTTTTT-AAAACATTTTGAAAACATATATAGTATATAGTTTTGAAAAC
* *
412668 ATTTATATATTTTATAGTTTTTAAAACATTTTGAAAACATATATAGTATATAGTTTTTAAAAC
1 ATTTATATATTATATAGTTTTTAAAACATTTTGAAAACATATATAGTATATAGTTTTGAAAAC
* * *
412731 ATTTTTGAAAAATTATATAATATATAGTTTTAAAAATATTTTTGAAAA-ATTATATAATATATAG
1 A--TTT-----A-TATAT--TATATAGTTTTTAAAACA-TTTTGAAAACA-TATATAGTATATAG
**
412795 TTTAAAAAAC
54 TTTTGAAAAC
* * *
412805 ATTTTTTGAAATATTATGTAATATATAGTTTTAAAAACATTTTTGAAAAAATATATAATATATAG
1 A---TTT---ATA-TA--T--TATATAGTTTTTAAAACA-TTTTGAAAACATATATAGTATATAG
*
412870 TTTTAAAAAC
54 TTTTGAAAAC
* * * *
412880 ATTTTTTGAAAACTTATATAATATTTTTAAAACATTTTGAAAAC-TATATAATATATAGTTTTGA
1 A-TTTAT--ATA-TTATAT-A-GTTTTTAAAACATTTTGAAAACATATATAGTATATAGTTTTGA
412944 AAAC
60 AAAC
412948 TTTTTAAAAT
Statistics
Matches: 235, Mismatches: 20, Indels: 42
0.79 0.07 0.14
Matches are distributed among these distances:
59 9 0.04
60 24 0.10
61 5 0.02
62 1 0.00
63 17 0.07
65 3 0.01
68 28 0.12
69 10 0.04
70 13 0.06
71 6 0.03
72 3 0.01
73 25 0.11
74 31 0.13
75 59 0.25
76 1 0.00
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (63 bp):
ATTTATATATTATATAGTTTTTAAAACATTTTGAAAACATATATAGTATATAGTTTTGAAAAC
Found at i:412748 original size:37 final size:37
Alignment explanation
Indices: 412658--412987 Score: 377
Period size: 37 Copynumber: 9.2 Consensus size: 37
412648 TAATATATAG
* * *
412658 TTTTGAAAACATTTATATATTTTATAGTTTTTAAAACA-
1 TTTTGAAAA-A-TTATATAATATATAGTTTTAAAAACAT
* *
412696 TTTTGAAAACA-TATATAGTATATAGTTTTTAAAACAT
1 TTTTGAAAA-ATTATATAATATATAGTTTTAAAAACAT
*
412733 TTTTGAAAAATTATATAATATATAGTTTTAAAAATAT
1 TTTTGAAAAATTATATAATATATAGTTTTAAAAACAT
*
412770 TTTTGAAAAATTATATAATATATAGTTTAAAAAACATT
1 TTTTGAAAAATTATATAATATATAGTTTTAAAAACA-T
* *
412808 TTTTGAAATATTATGTAATATATAGTTTTAAAAACAT
1 TTTTGAAAAATTATATAATATATAGTTTTAAAAACAT
*
412845 TTTTGAAAAAATATATAATATATAGTTTTAAAAACATT
1 TTTTGAAAAATTATATAATATATAGTTTTAAAAACA-T
*
412883 TTTTGAAAACTTATAT-A-ATAT--TTTT-AAAACA-
1 TTTTGAAAAATTATATAATATATAGTTTTAAAAACAT
* *
412914 TTTTG-AAAACTATATAATATATAGTTTTGAAAAC-T
1 TTTTGAAAAATTATATAATATATAGTTTTAAAAACAT
*
412949 TTTT---AAA--ATATAATATATAG-TTTAAAAATAT
1 TTTTGAAAAATTATATAATATATAGTTTTAAAAACAT
412980 TTTTGAAA
1 TTTTGAAA
412988 TATATAAATT
Statistics
Matches: 259, Mismatches: 19, Indels: 32
0.84 0.06 0.10
Matches are distributed among these distances:
30 15 0.06
31 24 0.09
32 4 0.02
33 9 0.03
34 9 0.03
35 9 0.03
36 28 0.11
37 101 0.39
38 60 0.23
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.45
Consensus pattern (37 bp):
TTTTGAAAAATTATATAATATATAGTTTTAAAAACAT
Found at i:412847 original size:75 final size:70
Alignment explanation
Indices: 412680--413001 Score: 367
Period size: 75 Copynumber: 4.6 Consensus size: 70
412670 TTATATATTT
* * *
412680 TATAGTTTTTAAAACA-TTTTGAAAACATATATAGTATATAGTTTTTAAAACATTTTTGAAAAAT
1 TATAGTTTTAAAAACATTTTTGAAAA-ATATATAATATATAGTTTTAAAAACATTTTTG-AAAA-
412744 TATATAATA
63 T-TATAATA
* *
412753 TATAGTTTTAAAAATATTTTTGAAAAATTATATAATATATAGTTTAAAAAACATTTTTTGAAATA
1 TATAGTTTTAAAAACATTTTTGAAAAA-TATATAATATATAGTTTTAAAAACA-TTTTTGAAA-A
412818 TTATGTAATA
63 TTA--TAATA
412828 TATAGTTTTAAAAACATTTTTGAAAAAATATATAATATATAGTTTTAAAAACATTTTTTGAAAAC
1 TATAGTTTTAAAAACATTTTTG-AAAAATATATAATATATAGTTTTAAAAACA-TTTTTGAAAA-
412893 TTAT-ATA
63 TTATAATA
* * *
412900 -ATA-TTTTTAAAACA-TTTTGAAAACTATATAATATATAGTTTTGAAAAC-TTTTT-AAAA-TA
1 TATAGTTTTAAAAACATTTTTGAAAAATATATAATATATAGTTTTAAAAACATTTTTGAAAATTA
412959 TAATA
66 TAATA
* *
412964 TATAG-TTTAAAAATATTTTTGAAATATATA-AATTATAT
1 TATAGTTTTAAAAACATTTTTGAAAAATATATAA-TATAT
413002 TTAGTATATT
Statistics
Matches: 222, Mismatches: 14, Indels: 33
0.83 0.05 0.12
Matches are distributed among these distances:
63 3 0.01
64 3 0.01
65 17 0.08
66 22 0.10
68 27 0.12
69 5 0.02
70 10 0.05
71 3 0.01
72 3 0.01
73 18 0.08
74 36 0.16
75 70 0.32
76 5 0.02
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (70 bp):
TATAGTTTTAAAAACATTTTTGAAAAATATATAATATATAGTTTTAAAAACATTTTTGAAAATTA
TAATA
Found at i:412898 original size:31 final size:29
Alignment explanation
Indices: 412862--412929 Score: 82
Period size: 33 Copynumber: 2.2 Consensus size: 29
412852 AAAATATATA
412862 ATATATAGTTTTAAAAACATTTTTTGAAAACTT
1 ATATATA-TTTTAAAAACA--TTTTGAAAAC-T
*
412895 ATATAATATTTTTAAAACATTTTGAAAACT
1 ATAT-ATATTTTAAAAACATTTTGAAAACT
412925 ATATA
1 ATATA
412930 ATATATAGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
29 1 0.03
30 5 0.15
31 10 0.30
33 14 0.42
34 3 0.09
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (29 bp):
ATATATATTTTAAAAACATTTTGAAAACT
Found at i:412959 original size:24 final size:24
Alignment explanation
Indices: 412914--412960 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
412904 TTTTAAAACA
*
412914 TTTTGAAAACTATATAATATATAG
1 TTTTGAAAACTATATAAAATATAG
* *
412938 TTTTGAAAACTTTTTAAAATATA
1 TTTTGAAAACTATATAAAATATA
412961 ATATATAGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (24 bp):
TTTTGAAAACTATATAAAATATAG
Found at i:413025 original size:5 final size:5
Alignment explanation
Indices: 413011--413068 Score: 53
Period size: 5 Copynumber: 10.8 Consensus size: 5
413001 TTTAGTATAT
* * *
413011 TTTTA TTTTTA TTTTA TTTTA TTCATGTA ATTTA TGTTA ATTTA TTTTA
1 TTTTA -TTTTA TTTTA TTTTA TT--T-TA TTTTA TTTTA TTTTA TTTTA
413060 TTTTA TTTT
1 TTTTA TTTT
413069 TCTTTTCAGG
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
5 33 0.77
6 6 0.14
7 1 0.02
8 3 0.07
ACGTcount: A:0.22, C:0.02, G:0.03, T:0.72
Consensus pattern (5 bp):
TTTTA
Found at i:413277 original size:16 final size:15
Alignment explanation
Indices: 413256--413285 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
413246 TCGACCGTTT
413256 ATCCCGGGACTGACCC
1 ATCCCGGGA-TGACCC
413272 ATCCCGGGATGACC
1 ATCCCGGGATGACC
413286 GGCCATAACG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.20, C:0.40, G:0.27, T:0.13
Consensus pattern (15 bp):
ATCCCGGGATGACCC
Found at i:414240 original size:2 final size:2
Alignment explanation
Indices: 414222--414263 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
414212 TCATTTATTT
414222 TA TA T- TA T- TA T- 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 TA TA TA TA TA TA TA
414261 TA T
1 TA T
414264 TTCTTTTTTC
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
1 3 0.08
2 34 0.92
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:420085 original size:20 final size:19
Alignment explanation
Indices: 420062--420108 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
420052 CGATATACCA
420062 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
420082 GGTAAGAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
420102 GGTAAAA
1 GGTAAAA
420109 CGTTACCGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.55, C:0.09, G:0.19, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:420186 original size:181 final size:182
Alignment explanation
Indices: 419850--420322 Score: 673
Period size: 181 Copynumber: 2.6 Consensus size: 182
419840 GATCCAAATT
* * * * * *
419850 AAAAATATGTCGATCTAAAACGATATAACAGATAAAACTATGACAAAACCAGTATTG-AAATGAT
1 AAAAATATATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTA-TGAAAATGAT
* * * * * * *
419914 AAAACCGGTAAAGCGCTACCGGATACATTTAAAGTGTTGGTACTTTAATATAAGGATTGACACTT
65 AAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTT
* *
419979 CGTGAATTTAAAAGAGAAGCAGTTTTAAG-TCCTATAAAGTGTCGATACTTTTA
130 CGTGAATTTAAAAGAGAAGCAGTTTT-AGCGCCTATAAAGTGTCGATACTTTAA
* * *
420032 AAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAACCGGTAAGAAAATGATA
1 AAAAATATATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATGAAAATGATA
* * *
420097 AAACCGGTAAAACGTTACCGAATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
* *
420161 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTTGATACTTTAA
131 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTAA
* *
420213 AAAAATATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATATATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATGAAAATGATA
*
420278 AAACCGGTAAAATGATACCGGATATATTGAAAGTGTCGATACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
420323 CGTAAGTACG
Statistics
Matches: 259, Mismatches: 30, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
180 2 0.01
181 165 0.64
182 92 0.36
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (182 bp):
AAAAATATATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATGAAAATGATA
AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTAA
Found at i:420266 original size:20 final size:19
Alignment explanation
Indices: 420243--420289 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
420233 CGATATAACA
420243 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
420263 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
420283 GGTAAAA
1 GGTAAAA
420290 TGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:420291 original size:17 final size:19
Alignment explanation
Indices: 420252--420294 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
420242 AGGTAAAAAT
420252 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
420272 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
420289 ATGATA
1 ATGATA
420295 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:422542 original size:21 final size:21
Alignment explanation
Indices: 422516--422568 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
422506 AAGACAATCA
*
422516 AGAGTCGAAGAGAAAATTGAT
1 AGAGTCGAAGAGAAAATTGAG
*
422537 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAAATTGAG
*
422558 AGAGCCGAAGA
1 AGAGTCGAAGA
422569 TACACTTGAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.45, C:0.09, G:0.32, T:0.13
Consensus pattern (21 bp):
AGAGTCGAAGAGAAAATTGAG
Found at i:422575 original size:21 final size:21
Alignment explanation
Indices: 422516--422580 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
422506 AAGACAATCA
* * *
422516 AGAGTCGAAGAGAAAATTGAT
1 AGAGCCGAAGAGAAACTTGAG
*
422537 AGAGTCGAAGAGAAACTTGAG
1 AGAGCCGAAGAGAAACTTGAG
* *
422558 AGAGCCGAAGATACACTTGAG
1 AGAGCCGAAGAGAAACTTGAG
422579 AG
1 AG
422581 GCATAAGGGG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.43, C:0.11, G:0.31, T:0.15
Consensus pattern (21 bp):
AGAGCCGAAGAGAAACTTGAG
Found at i:422903 original size:18 final size:17
Alignment explanation
Indices: 422865--422918 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 17
422855 GAAAAAATAT
422865 GAAGAAGAAAAGAGGGAG
1 GAAGAAGAAAAGA-GGAG
*
422883 GAAGAAGAAGAAGA-GAT
1 GAAGAAGAA-AAGAGGAG
*
422900 G--GAAGAAATGAGGAG
1 GAAGAAGAAAAGAGGAG
422915 GAAG
1 GAAG
422919 GAAGTCGGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 9
0.71 0.07 0.22
Matches are distributed among these distances:
14 3 0.10
15 9 0.31
17 4 0.14
18 9 0.31
19 4 0.14
ACGTcount: A:0.54, C:0.00, G:0.43, T:0.04
Consensus pattern (17 bp):
GAAGAAGAAAAGAGGAG
Found at i:424509 original size:19 final size:19
Alignment explanation
Indices: 424481--424522 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
424471 AGGCCTTTAG
424481 GTATAAGATTTATAATTTT
1 GTATAAGATTTATAATTTT
*
424500 GTATAGGATTTATAATTTT
1 GTATAAGATTTATAATTTT
424519 GTAT
1 GTAT
424523 GTGAATATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.52
Consensus pattern (19 bp):
GTATAAGATTTATAATTTT
Found at i:424533 original size:18 final size:19
Alignment explanation
Indices: 424481--424534 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
424471 AGGCCTTTAG
* *
424481 GTATAAGATTTATAATTTT
1 GTATAGGATATATAATTTT
*
424500 GTATAGGATTTATAATTTT
1 GTATAGGATATATAATTTT
424519 GTAT-GTGA-ATATAATT
1 GTATAG-GATATATAATT
424535 ATGAATGAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
18 8 0.25
19 24 0.75
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (19 bp):
GTATAGGATATATAATTTT
Found at i:424984 original size:200 final size:200
Alignment explanation
Indices: 424641--425373 Score: 1371
Period size: 200 Copynumber: 3.7 Consensus size: 200
424631 CAATATGGCC
*
424641 AACAGGGTGCAACCATAAAGTGTCGAACCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
*
424706 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGATTTTATGAGA
424771 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
424836 TGGAA
196 TGGAA
424841 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
* *
424906 CCAAAAGTATAATGTAATATGTAAATTTTCAATCTAACTGGTACAAGTATACCGATTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGATTTTATGAGA
424971 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
425036 TGGAA
196 TGGAA
* *
425041 AACAGGGTGCAACCATAAAGTGTCAATCCATATATAAAAAGTGTTGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
425106 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACC-AGTTTTATGAG
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGA-TTTTATGAG
425170 AGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGA
130 AGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGA
425235 ATGGAA
195 ATGGAA
425241 AACAGGGTGCAACCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
* *
425305 CCAAAAGTACAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGATTTTATGAGA
425370 GAAT
131 GAAT
425374 TGGTATATAA
Statistics
Matches: 519, Mismatches: 12, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
199 95 0.18
200 424 0.82
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (200 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGATTTTATGAGA
GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
TGGAA
Found at i:426897 original size:6 final size:6
Alignment explanation
Indices: 426872--426970 Score: 74
Period size: 6 Copynumber: 16.7 Consensus size: 6
426862 CAAGCGGTCA
* * * * *
426872 ATGAAG ATGAA- CTGACG ATGAAG ATGACG ATGATG ATGACG ATGAAG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
* * * * * * * *
426919 CTGACG ATGAAG ATGAAG ATGATG ACGATG ATGATG ATGATG ATGATG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
426967 ATGA
1 ATGA
426971 TCCAAACAAG
Statistics
Matches: 77, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
5 3 0.04
6 74 0.96
ACGTcount: A:0.38, C:0.07, G:0.32, T:0.22
Consensus pattern (6 bp):
ATGAAG
Found at i:426908 original size:3 final size:3
Alignment explanation
Indices: 426888--426971 Score: 87
Period size: 3 Copynumber: 28.0 Consensus size: 3
426878 ATGAACTGAC
* * * * * * * *
426888 GAT GAA GAT GAC GAT GAT GAT GAC GAT GAA GCT GAC GAT GAA GAT GAA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
*
426936 GAT GAT GAC GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
426972 CCAAACAAGT
Statistics
Matches: 63, Mismatches: 18, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.37, C:0.06, G:0.33, T:0.24
Consensus pattern (3 bp):
GAT
Found at i:426971 original size:12 final size:12
Alignment explanation
Indices: 426884--426967 Score: 102
Period size: 12 Copynumber: 7.2 Consensus size: 12
426874 GAAGATGAAC
*
426884 TGACGATGAAGA
1 TGACGATGATGA
426896 TGACGATGATGA
1 TGACGATGATGA
* *
426908 TGACGATGAAGC
1 TGACGATGATGA
*
426920 TGACGATGAAGA
1 TGACGATGATGA
426932 TGA--A-GATGA
1 TGACGATGATGA
426941 TGACGATGATGA
1 TGACGATGATGA
*
426953 TGATGATGATGA
1 TGACGATGATGA
426965 TGA
1 TGA
426968 TGATCCAAAC
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
9 7 0.11
10 1 0.02
11 1 0.02
12 54 0.86
ACGTcount: A:0.37, C:0.07, G:0.33, T:0.23
Consensus pattern (12 bp):
TGACGATGATGA
Found at i:428480 original size:182 final size:181
Alignment explanation
Indices: 428167--429080 Score: 1374
Period size: 182 Copynumber: 5.1 Consensus size: 181
428157 CAAAGTTTTC
** * *
428167 ACACTTTTTAATA-TGTGTATGTA-TTTATGTCCAGAATGGAA-AAAAATGTATCGATACCATTT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTT
** * *
428229 AAAAAGTGTCG--ATGAAAAACATCGAAACCCAGAATTATAATGTAATAGATAATTTT-TAATAT
65 AAAAAGTGTCGACAT-TTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
428291 AAACCGGTATAAATATA-CGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
129 -AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
428344 ACACTTTTTAATATTGTGTCGGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATT-T
428409 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
65 -AAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
*
428474 AACCGGTATAAATATACCGGTTTTA-GAGCGAATAGGTCTACAACCTACATCG
129 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
* *
428526 ACACTTTTTAATATTGTGTCAGAACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATT-T
428591 CAAAAAGTGTCGACATTT--ACATCGGAACCCAGAATTATAATGTAATAGATAA-TTTGTAATAT
65 -AAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
**
428653 AACAAGTA-AAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
129 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
* * *
428705 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATATGTCGATCCATTTA
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTTA
428770 AAAAGTGTCGACATTTACACATCGGAACCC-G-ATT-TAATGTAATAGATAATTTTGTAATAT-A
66 AAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAA
428831 -CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 CCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
428881 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTT
*
428946 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGT-ATAT
65 -AAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
*
429010 AA-C-GTATAAATATACCAG-TTT-T--GCG-ATAGGTCTTACAACCTATATCG
129 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTC-TACAACCTATATCG
*
429057 ACACGTTTTAATATTGTGTCGGTA
1 ACACTTTTTAATATTGTGTCGGTA
429081 ATTTTAAAGT
Statistics
Matches: 689, Mismatches: 27, Indels: 43
0.91 0.04 0.06
Matches are distributed among these distances:
175 10 0.01
176 156 0.23
177 48 0.07
178 57 0.08
179 137 0.20
180 69 0.10
181 34 0.05
182 162 0.24
183 16 0.02
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (181 bp):
ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTTA
AAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAA
CCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
Found at i:430351 original size:381 final size:376
Alignment explanation
Indices: 429654--430411 Score: 1401
Period size: 381 Copynumber: 2.0 Consensus size: 376
429644 TGCTTCAAAA
429654 TGTGAAGTTGATGGCGACACGGAAGTCCAACGGTCTCGAATTTTTTGCATGAGCAAATTAGAGTT
1 TGTGAAGTTGATGGCGACACGGAAGTCCAACGGTCTCGAATTTTTTGCATGAGCAAATTAGAGTT
429719 TTTGTACGATAATCAAAACTAATTTCAAATTCCTATTTTTCTGCGTACTTTGACAAATATAATGT
66 TTTGTACGATAATCAAAACTAATTTCAAATTCCTATTTTTCTGCGTACTTTGACAAATATAATGT
429784 TGACATTAATCTAATAAGGACTTAATCTCTGCCACAATCCGGTACATGTCTCCGTATAAGTTATC
131 TGACATTAATCTAATAAGGACTTAATCTCTGCCACAATCCGGTACATGTCTCCGTATAAGTTATC
*
429849 TTGGAACACACGAAAATATTCGCGGGTAAAAATCGTAGCGGCATGGCTTTCAAGGTCGACCAGTT
196 TTGGAACACACGAAAAGATTCGCGGGTAAAAATCGTAGCGGCATGGCTTTCAAGGTCGACCAGTT
429914 TTGTGATCTGGAAGGGCATCGTATGGGAACTTAAGTAATCCGCTTTCAACTCGTTCATACGCATT
261 TTGTGATCTGGAAGGGCATCGTATGGGAACTTAAGTAATCCGCTTTCAACTCGTTCATACGCATT
429979 CTACTAATTCCATCTTCAATTGCACGAACAACATCTAAATA-TCTTCTTGT
326 CTACTAATTCCATCTTCAATTGCACGAACAACATCTAAATAGTCTTCTTGT
430029 TGTGAAGTTGATGGCGACACGGAAGTCCAACGGTCTCGAATTTTTTGCATGAGCAAATTAGAGTT
1 TGTGAAGTTGATGGCGACACGGAAGTCCAACGGTCTCGAATTTTTTGCATGAGCAAATTAGAGTT
430094 TTTGTACGATAATCAAAACTAATTTCAAATTTCCTATTTTTTCTGCGTACTTTGACAAAATATAA
66 TTTGTACGATAATCAAAACTAATTTCAAA-TTCCTA-TTTTTCTGCGTACTTTGAC-AAATATAA
* *
430159 TGTTGACATTCATCTAATAAGGACTTAATCTCTGCCACAATCTGGTACAATGTCTCCCGTATAAG
128 TGTTGACATTAATCTAATAAGGACTTAATCTCTGCCACAATCCGGTAC-ATGTCT-CCGTATAAG
430224 TTCATCTTGGAACACACGAAAAGATTCGCGGGTAAAAATCGTAGCGGCATGGCTTTCAAGGTCGA
191 TT-ATCTTGGAACACACGAAAAGATTCGCGGGTAAAAATCGTAGCGGCATGGCTTTCAAGGTCGA
* *
430289 CCAGTTTTGTGATCTGGAAGGGCTTCGTATGGGAACTTAAGTAATCCTCTTTCAACTCGTTCATA
255 CCAGTTTTGTGATCTGGAAGGGCATCGTATGGGAACTTAAGTAATCCGCTTTCAACTCGTTCATA
430354 CGCATTCTACTAATTCCATCTTCAATTGCACGAACAACATCTAAATATGTCTTCTTGT
320 CGCATTCTACTAATTCCATCTTCAATTGCACGAACAACATCTAAATA-GTCTTCTTGT
430412 GTTTCAGTGC
Statistics
Matches: 370, Mismatches: 5, Indels: 8
0.97 0.01 0.02
Matches are distributed among these distances:
375 94 0.25
376 6 0.02
377 19 0.05
378 54 0.15
379 6 0.02
380 11 0.03
381 171 0.46
383 9 0.02
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.33
Consensus pattern (376 bp):
TGTGAAGTTGATGGCGACACGGAAGTCCAACGGTCTCGAATTTTTTGCATGAGCAAATTAGAGTT
TTTGTACGATAATCAAAACTAATTTCAAATTCCTATTTTTCTGCGTACTTTGACAAATATAATGT
TGACATTAATCTAATAAGGACTTAATCTCTGCCACAATCCGGTACATGTCTCCGTATAAGTTATC
TTGGAACACACGAAAAGATTCGCGGGTAAAAATCGTAGCGGCATGGCTTTCAAGGTCGACCAGTT
TTGTGATCTGGAAGGGCATCGTATGGGAACTTAAGTAATCCGCTTTCAACTCGTTCATACGCATT
CTACTAATTCCATCTTCAATTGCACGAACAACATCTAAATAGTCTTCTTGT
Found at i:431931 original size:25 final size:25
Alignment explanation
Indices: 431903--431966 Score: 112
Period size: 25 Copynumber: 2.6 Consensus size: 25
431893 ATATCATTAA
431903 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
431928 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
431953 A-TTAGGTATATACA
1 ATTTAGGTATGTACA
431967 TCTTTTGAGT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
24 12 0.32
25 26 0.68
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.36
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:432286 original size:22 final size:22
Alignment explanation
Indices: 432242--432286 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
432232 ATTACATAAC
**
432242 TTTAAAAAAAGTATCGATTCTT
1 TTTAAAAAAAGTATCGACACTT
* *
432264 TTTATAAAAAGTATGGACACTT
1 TTTAAAAAAAGTATCGACACTT
432286 T
1 T
432287 CAATATAATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (22 bp):
TTTAAAAAAAGTATCGACACTT
Found at i:432335 original size:23 final size:23
Alignment explanation
Indices: 432304--432356 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
432294 ATAGGTAAAA
*
432304 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
432327 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
432350 ATATAAT
1 ATATAAT
432357 AGGTAGTGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.36, C:0.06, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:432358 original size:18 final size:22
Alignment explanation
Indices: 432311--432371 Score: 76
Period size: 23 Copynumber: 2.9 Consensus size: 22
432301 AAAATATGAT
432311 GTAATAGGTAGCGCTTATATAA
1 GTAATAGGTAGCGCTTATATAA
432333 TGTAATAGGTAGCG-TT-TAT-A
1 -GTAATAGGTAGCGCTTATATAA
*
432353 -TAATAGGTAGTGCTTATAT
1 GTAATAGGTAGCGCTTATAT
432372 TGTAAAGTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
18 11 0.31
19 2 0.06
20 4 0.11
21 3 0.09
22 2 0.06
23 13 0.37
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.38
Consensus pattern (22 bp):
GTAATAGGTAGCGCTTATATAA
Found at i:432817 original size:23 final size:23
Alignment explanation
Indices: 432786--432858 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
432776 ATAGGTAAAA
* *
432786 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAACGCTT
* *
432809 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAACGCTT
* *
432832 ATATAATGTAATAAGTAATGCTT
1 ATATAATGTAATAGGTAACGCTT
432855 ATAT
1 ATAT
432859 TGTAAGTATC
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.37, C:0.05, G:0.18, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAACGCTT
Found at i:433223 original size:489 final size:482
Alignment explanation
Indices: 431966--433259 Score: 2365
Period size: 488 Copynumber: 2.7 Consensus size: 482
431956 AGGTATATAC
431966 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTA-TTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
432030 GTTACGATATATTATTATTAAATTAAAAACAATAAAC--ATATA-TACATATTTATTATTATCTT
66 GTTACGATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTT
432092 TGGTTAATATTGTTAAATTTAAATTCTAAATA-TATTTTATAAATATCAAAACAATCAAATAATT
131 TGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAATATCAAAACAATCAAATAATT
432156 TTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAA
196 TTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAA
432220 ATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGAT-TCTTTTTATAAAAAGTATGGACAC
261 ATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCTCTTTTTATAAAAAGTATGGACAC
432284 TTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTT
326 TTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTT
* *
432349 TATATAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTT
391 TATATAATAAGTAATGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTT
*
432414 TCACTGGGAAAACATTAATTTAATGTT
456 TCACTGGGAAAACATTAATTTAAGGTT
432441 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
432506 GTTACGATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTT
66 GTTACGATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTT
432571 TGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAATATCAAAACAATCAAATAATT
131 TGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAATATCAAAACAATCAAATAATT
* *
432636 TTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAATACTATTAAAAAAA
196 TTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAA
*
432701 ATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCTTTTTTTATAAAAAGTATGGACAC
261 ATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCTCTTTTTATAAAAAGTATGGACAC
*
432766 TTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTT
326 TTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCG-T
432831 TATATAATGTAATAAGTAATGCTTATATTGT-AAGTATCTATCCTTTTTAT-AAAGTGTCCATAC
390 T-TAT-A--TAATAAGTAATGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATAC
432894 TTTTTTCACTGTGGAAAACATTAATTTAAGGTT
451 TTTTTTCACTG-GGAAAACATTAATTTAAGGTT
432927 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
432992 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
66 GTTACG--ATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
433057 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
129 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTAT-AAATATCAAAACAATCAAATA
*
433122 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAGACACTATTAAAA
193 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
433187 AAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATC-CTTTTTATAAAAAGTATGGA
258 AAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCTCTTTTTATAAAAAGTATGGA
433251 CACTTTCAA
323 CACTTTCAA
433260 CATATTATAA
Statistics
Matches: 792, Mismatches: 11, Indels: 19
0.96 0.01 0.02
Matches are distributed among these distances:
475 57 0.07
476 44 0.06
478 5 0.01
479 52 0.07
480 88 0.11
481 46 0.06
482 85 0.11
483 2 0.00
484 3 0.00
485 25 0.03
486 110 0.14
487 20 0.03
488 128 0.16
489 127 0.16
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.40
Consensus pattern (482 bp):
ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
GTTACGATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTT
TGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAATATCAAAACAATCAAATAATT
TTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAA
ATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCTCTTTTTATAAAAAGTATGGACAC
TTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTT
TATATAATAAGTAATGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTT
TCACTGGGAAAACATTAATTTAAGGTT
Found at i:433905 original size:16 final size:16
Alignment explanation
Indices: 433884--433914 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
433874 AAACAAAAAA
433884 AATTTTGTCTTAACAC
1 AATTTTGTCTTAACAC
433900 AATTTTGTCTTAACA
1 AATTTTGTCTTAACA
433915 ATGGCCAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.16, G:0.06, T:0.45
Consensus pattern (16 bp):
AATTTTGTCTTAACAC
Found at i:446264 original size:59 final size:59
Alignment explanation
Indices: 446147--446541 Score: 632
Period size: 59 Copynumber: 6.7 Consensus size: 59
446137 TTTATTCTTA
* * * * *
446147 AGTATGAATTTCTTATCATTTTAGGACACGAAGTGCCCCCCTATATGGAAATTTATACACTT
1 AGTATGAATTCCTTCTCATGTTAGCACACGAAGTG---CCCTATATGGAAATTCATACACTT
*
446209 AGTATGAATTCCTTCTCATGTTAGCACACGAAGTTCCCTATATGGAAATTCATACACTT
1 AGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTT
446268 AGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTT
1 AGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTT
* *
446327 AGTATGAATTCCTTCTCATGTTAACACACGAAGTGCCCAATAT-GAAAGTTC-TACACTT
1 AGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATATGGAAA-TTCATACACTT
446385 AGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTT
1 AGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTT
446444 AGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTT
1 AGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTT
** * *
446503 AGTATGAATTCCTTGACATTTTAGCACACGTAGTGCCCT
1 AGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCT
446542 TTTGGTAATC
Statistics
Matches: 315, Mismatches: 15, Indels: 9
0.93 0.04 0.03
Matches are distributed among these distances:
58 55 0.17
59 230 0.73
62 30 0.10
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (59 bp):
AGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTT
Found at i:446445 original size:176 final size:177
Alignment explanation
Indices: 446147--446540 Score: 648
Period size: 176 Copynumber: 2.2 Consensus size: 177
446137 TTTATTCTTA
* * * *
446147 AGTATGAATTTCTTATCATTTTAGGACACGAAGTGCCCCCCTATATGGAAATTTATACACTTAGT
1 AGTATGAATTCCTTATCATTTTAGCACACGAAGTG---CCCAATATGGAAAGTTATACACTTAGT
*
446212 ATGAATTCCTTCTCATGTTAGCACACGAAGTTCCCTATATGGAAATTCATACACTTAGTATGAAT
63 ATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAAT
446277 TCCTTCTCATGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTT
128 TCCTTCTCATGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTT
* * * *
446327 AGTATGAATTCCTTCTCATGTTAACACACGAAGTGCCCAATAT-GAAAGTTCTACACTTAGTATG
1 AGTATGAATTCCTTATCATTTTAGCACACGAAGTGCCCAATATGGAAAGTTATACACTTAGTATG
446391 AATTCCTTCTCATGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCC
66 AATTCCTTCTCATGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCC
446456 TTCTCATGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTT
131 TTCTCATGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTT
*
446503 AGTATGAATTCCTTGA-CATTTTAGCACACGTAGTGCCC
1 AGTATGAATTCCTT-ATCATTTTAGCACACGAAGTGCCC
446541 TTTTGGTAAT
Statistics
Matches: 200, Mismatches: 13, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
176 163 0.81
177 7 0.04
180 30 0.15
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (177 bp):
AGTATGAATTCCTTATCATTTTAGCACACGAAGTGCCCAATATGGAAAGTTATACACTTAGTATG
AATTCCTTCTCATGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTTAGTATGAATTCC
TTCTCATGTTAGCACACGAAGTGCCCTATATGGAAATTCATACACTT
Found at i:447002 original size:94 final size:95
Alignment explanation
Indices: 446862--447083 Score: 245
Period size: 95 Copynumber: 2.3 Consensus size: 95
446852 TATGGTTCCT
* * * * * *
446862 CAGTATCAATACTCC-CACAATAGTATCGATACTACCCTACTATGGTA-TCGATACCCCT-TCCA
1 CAGTATCAATAC-CCTTACCATAGTATCAATACTACCATACTATGGTACT-AATACCCCTATACA
*
446924 GTATCGATAACAAAATTAGATTCGATG-TGGCC
64 GTATCGATAACAAAATTAGATTCGATGAT-ACC
* * **
446956 CAGTATCGATACCCTTACCATAGTATCAATACTACTATACTATGGTACTAATACCCCTATATGGT
1 CAGTATCAATACCCTTACCATAGTATCAATACTACCATACTATGGTACTAATACCCCTATACAGT
* *
447021 ATCGATACCAAAATTAGGTTCGATGATACC
66 ATCGATAACAAAATTAGATTCGATGATACC
** *
447051 TGGTATCAATACCCTTACCATGGTATCAATACT
1 CAGTATCAATACCCTTACCATAGTATCAATACT
447084 TGTAACATCC
Statistics
Matches: 107, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
93 2 0.02
94 46 0.43
95 58 0.54
96 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.30
Consensus pattern (95 bp):
CAGTATCAATACCCTTACCATAGTATCAATACTACCATACTATGGTACTAATACCCCTATACAGT
ATCGATAACAAAATTAGATTCGATGATACC
Found at i:448561 original size:22 final size:23
Alignment explanation
Indices: 448536--448590 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
448526 AATGCCAAGA
* *
448536 TTCGAGG-GATATACAATGGTCC
1 TTCGAGGACATATACAATAGTCC
*
448558 TTCG-GGACATATACAGTAGTCC
1 TTCGAGGACATATACAATAGTCC
448580 TTCGA-GACATA
1 TTCGAGGACATA
448591 GTGGTCATTC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
21 2 0.07
22 26 0.93
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (23 bp):
TTCGAGGACATATACAATAGTCC
Found at i:449422 original size:22 final size:21
Alignment explanation
Indices: 449379--449422 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
449369 TACGGAAGTA
* *
449379 CTATAGCAGGGTATTGATTCC
1 CTATAGCAGGGAATCGATTCC
449400 CTATAGCAGGGGAATCGATTCC
1 CTATAGCA-GGGAATCGATTCC
449422 C
1 C
449423 CTCTTTGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (21 bp):
CTATAGCAGGGAATCGATTCC
Found at i:453083 original size:24 final size:26
Alignment explanation
Indices: 453054--453101 Score: 73
Period size: 24 Copynumber: 1.9 Consensus size: 26
453044 ACTATATATA
453054 TTTAATACTTAAA-TT-ATTTTTTAT
1 TTTAATACTTAAACTTGATTTTTTAT
*
453078 TTTAATATTTAAACTTGATTTTTT
1 TTTAATACTTAAACTTGATTTTTT
453102 TAATATTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 12 0.57
25 2 0.10
26 7 0.33
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (26 bp):
TTTAATACTTAAACTTGATTTTTTAT
Found at i:462395 original size:3 final size:3
Alignment explanation
Indices: 462387--462434 Score: 80
Period size: 3 Copynumber: 16.0 Consensus size: 3
462377 ATTTAATTTT
462387 TTA TTA TTA TTA TTA TTA TTA TTA TT- TATA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
462432 TTA
1 TTA
462435 ACTTACATAT
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 1 0.02
3 41 0.95
4 1 0.02
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:464024 original size:30 final size:30
Alignment explanation
Indices: 463988--464045 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
463978 TTAACCCATG
*
463988 AAGTTTCTGTTCTTT-ACTGTTTTAGTCCCT
1 AAGTTTCTGTT-TTTGACTATTTTAGTCCCT
*
464018 AAGTTTCTGTTTTTGGCTATTTTAGTCC
1 AAGTTTCTGTTTTTGACTATTTTAGTCC
464046 ATTATGGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 3 0.12
30 22 0.88
ACGTcount: A:0.14, C:0.17, G:0.16, T:0.53
Consensus pattern (30 bp):
AAGTTTCTGTTTTTGACTATTTTAGTCCCT
Found at i:464909 original size:16 final size:16
Alignment explanation
Indices: 464868--464909 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
464858 AACGTAGACC
464868 AATTGTTTTGTCTTAA
1 AATTGTTTTGTCTTAA
* *
464884 AAATGATTTTTTCTTAA
1 AATTG-TTTTGTCTTAA
464901 AATTGTTTT
1 AATTGTTTT
464910 AAAAGACGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.29, C:0.05, G:0.10, T:0.57
Consensus pattern (16 bp):
AATTGTTTTGTCTTAA
Found at i:465982 original size:30 final size:30
Alignment explanation
Indices: 465948--466022 Score: 132
Period size: 30 Copynumber: 2.5 Consensus size: 30
465938 TTATCATTTG
465948 TACTAACTCATTTTTCTCTGGTGTTTGTGT
1 TACTAACTCATTTTTCTCTGGTGTTTGTGT
*
465978 TACTAATTCATTTTTCTCTGGTGTTTGTGT
1 TACTAACTCATTTTTCTCTGGTGTTTGTGT
*
466008 TACTAACTTATTTTT
1 TACTAACTCATTTTT
466023 TCTCATTTGC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.16, C:0.15, G:0.13, T:0.56
Consensus pattern (30 bp):
TACTAACTCATTTTTCTCTGGTGTTTGTGT
Found at i:466037 original size:31 final size:30
Alignment explanation
Indices: 465948--466040 Score: 109
Period size: 30 Copynumber: 3.1 Consensus size: 30
465938 TTATCATTTG
* *
465948 TACTAACTCATTTTTCTCTGGTGTTTGTGT
1 TACTAATTCATTTTTCTCTGGTGCTTGTGT
*
465978 TACTAATTCATTTTTCTCTGGTGTTTGTGT
1 TACTAATTCATTTTTCTCTGGTGCTTGTGT
*
466008 TACTAACTT-ATTTTTTCTCAT-TTGCTTGTGT
1 TACTAA-TTCA-TTTTTCTC-TGGTGCTTGTGT
466039 TA
1 TA
466041 TTTTTCATCA
Statistics
Matches: 57, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
30 36 0.63
31 20 0.35
32 1 0.02
ACGTcount: A:0.15, C:0.15, G:0.14, T:0.56
Consensus pattern (30 bp):
TACTAATTCATTTTTCTCTGGTGCTTGTGT
Found at i:468837 original size:2 final size:2
Alignment explanation
Indices: 468830--468862 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
468820 GTATACCCAA
*
468830 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
468863 CAATAAAGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:469792 original size:37 final size:38
Alignment explanation
Indices: 469711--469796 Score: 122
Period size: 37 Copynumber: 2.3 Consensus size: 38
469701 CAGGATCGAA
*
469711 GTTGGGGCAAGAGAAGCCAAATTTGTGGGGTAAATTTT
1 GTTGGGGCAAGAGAAGCCAAATTTGTGGGGTAAAATTT
* *
469749 GCTGGGGCAAGAGAAGCC-AATTT-TTGGGTCAAAATTT
1 GTTGGGGCAAGAGAAGCCAAATTTGTGGGGT-AAAATTT
469786 GTTGGGGCAAG
1 GTTGGGGCAAG
469797 GAAACAAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
36 5 0.12
37 21 0.49
38 17 0.40
ACGTcount: A:0.28, C:0.10, G:0.35, T:0.27
Consensus pattern (38 bp):
GTTGGGGCAAGAGAAGCCAAATTTGTGGGGTAAAATTT
Found at i:469926 original size:4 final size:4
Alignment explanation
Indices: 469917--469954 Score: 67
Period size: 4 Copynumber: 9.5 Consensus size: 4
469907 TCGAGAAAAG
*
469917 CATA CATA CATA TATA CATA CATA CATA CATA CATA CA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CA
469955 CATACACATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
CATA
Found at i:470014 original size:4 final size:4
Alignment explanation
Indices: 470007--470479 Score: 480
Period size: 4 Copynumber: 118.0 Consensus size: 4
469997 CACGCGCGCG
*** * *
470007 CACA CACA CACA CACA TGTA CACA CACA CACA CATA CAAA CACA CACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * *** *
470055 -ACA TACA TACA CACA TACA CACA CACA CACA CACA CACA CGTG TACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
470102 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
470150 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * *
470198 CACA CACA CACA CACA CACA CACA CACA TACA CACA CATA CACA TACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * **
470246 GACA CACA CACA TACA TACA CACA CATG CACA CACA CACA CACA CACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* ** * * * * * * *
470294 CACA CACA TACA CATG CACA CACG CACG CGCA CACG CACG CGCA CACG
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * * * * * * *
470342 CACG CGCA CACG CACG CGCA CACG CACGA GCACA CGCA CGCA CGCA CGCA
1 CACA CACA CACA CACA CACA CACA CAC-A -CACA CACA CACA CACA CACA
* * * * *
470392 CGCA CACA CGCA CGCA CGCA CACA CACA CACA CACA CACA CACA CATA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * **
470440 CACA CACA TACA TACA CACA CACA CACA TGCA CACA CACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
470480 TGCACGCACG
Statistics
Matches: 397, Mismatches: 69, Indels: 6
0.84 0.15 0.01
Matches are distributed among these distances:
3 3 0.01
4 390 0.98
5 1 0.00
6 3 0.01
ACGTcount: A:0.44, C:0.45, G:0.06, T:0.04
Consensus pattern (4 bp):
CACA
Found at i:470031 original size:16 final size:14
Alignment explanation
Indices: 470007--470479 Score: 480
Period size: 14 Copynumber: 33.7 Consensus size: 14
469997 CACGCGCGCG
470007 CACACACACACACA
1 CACACACACACACA
***
470021 CATGTACACACACA
1 CACACACACACACA
* *
470035 CACACATACAAACA
1 CACACACACACACA
*
470049 CACACA-ACATACA
1 CACACACACACACA
* *
470062 TACACACATACACA
1 CACACACACACACA
470076 CACACACACACACA
1 CACACACACACACA
****
470090 CACACGTGTACACA
1 CACACACACACACA
470104 CACACACACACACA
1 CACACACACACACA
470118 CACACACACACACA
1 CACACACACACACA
470132 CACACACACACACA
1 CACACACACACACA
470146 CACACACACACACA
1 CACACACACACACA
470160 CACACACACACACA
1 CACACACACACACA
470174 CACACACACACACA
1 CACACACACACACA
470188 CACACACACACACA
1 CACACACACACACA
470202 CACACACACACACA
1 CACACACACACACA
*
470216 CACACACACATACA
1 CACACACACACACA
* *
470230 CACACATACACATA
1 CACACACACACACA
*
470244 CAGACACACACACA
1 CACACACACACACA
* *
470258 TACATACACACACA
1 CACACACACACACA
**
470272 TGCACACACACACA
1 CACACACACACACA
470286 CACACACACACACA
1 CACACACACACACA
* **
470300 CATACACATGCACA
1 CACACACACACACA
* * *
470314 CACGCACGCGCACA
1 CACACACACACACA
* * * *
470328 CGCACGCGCACACG
1 CACACACACACACA
* * *
470342 CACGCGCACACGCA
1 CACACACACACACA
* * *
470356 CGCGCACACGCACGA
1 CACACACACACAC-A
* * *
470371 GCACACGCACGCACG
1 -CACACACACACACA
* *
470386 CACGCACGCACACA
1 CACACACACACACA
* * *
470400 CGCACGCACGCACA
1 CACACACACACACA
470414 CACACACACACACA
1 CACACACACACACA
*
470428 CACACACACATACA
1 CACACACACACACA
* *
470442 CACACATACATACA
1 CACACACACACACA
**
470456 CACACACACACATG
1 CACACACACACACA
470470 CACACACACA
1 CACACACACA
470480 TGCACGCACG
Statistics
Matches: 376, Mismatches: 80, Indels: 6
0.81 0.17 0.01
Matches are distributed among these distances:
13 11 0.03
14 354 0.94
15 1 0.00
16 10 0.03
ACGTcount: A:0.44, C:0.45, G:0.06, T:0.04
Consensus pattern (14 bp):
CACACACACACACA
Found at i:470480 original size:12 final size:12
Alignment explanation
Indices: 470007--470586 Score: 362
Period size: 12 Copynumber: 48.4 Consensus size: 12
469997 CACGCGCGCG
*
470007 CACACACACACA
1 CACACGCACACA
* *
470019 CACATGTACACA
1 CACACGCACACA
* *
470031 CACACACACATA
1 CACACGCACACA
* *
470043 CAAACACACACA
1 CACACGCACACA
** *
470055 -ACATACATACA
1 CACACGCACACA
**
470066 CACATACACACA
1 CACACGCACACA
*
470078 CACACACACACA
1 CACACGCACACA
***
470090 CACACGTGTACA
1 CACACGCACACA
470102 CACA--CACACA
1 CACACGCACACA
*
470112 CACACACACACA
1 CACACGCACACA
*
470124 CACACACACACA
1 CACACGCACACA
*
470136 CACACACACACA
1 CACACGCACACA
*
470148 CACACACACACA
1 CACACGCACACA
*
470160 CACACACACACA
1 CACACGCACACA
*
470172 CACACACACACA
1 CACACGCACACA
*
470184 CACACACACACA
1 CACACGCACACA
*
470196 CACACACACACA
1 CACACGCACACA
*
470208 CACACACACACA
1 CACACGCACACA
**
470220 CACACATACACA
1 CACACGCACACA
** *
470232 CACATACACATA
1 CACACGCACACA
* *
470244 CAGACACACACA
1 CACACGCACACA
* **
470256 CATACATACACA
1 CACACGCACACA
*
470268 CACATGCACACA
1 CACACGCACACA
*
470280 CACACACACACA
1 CACACGCACACA
* *
470292 CACACACACATA
1 CACACGCACACA
*
470304 CACATGCACACA
1 CACACGCACACA
* *
470316 CGCACGCGCACA
1 CACACGCACACA
* *
470328 CGCACGCGCACA
1 CACACGCACACA
* *
470340 CGCACGCGCACA
1 CACACGCACACA
* *
470352 CGCACGCGCACA
1 CACACGCACACA
*
470364 CGCACG-AGCACA
1 CACACGCA-CACA
* *
470376 CGCACGCACGCA
1 CACACGCACACA
*
470388 CGCACGCACACA
1 CACACGCACACA
470400 CGCACGCACGCACACA
1 --CA--CACGCACACA
*
470416 CACACACACACA
1 CACACGCACACA
* *
470428 CACACACACATA
1 CACACGCACACA
* *
470440 CACACACATACA
1 CACACGCACACA
* *
470452 TACACACACACA
1 CACACGCACACA
*
470464 CACATGCACACA
1 CACACGCACACA
* *
470476 CACATGCACGCA
1 CACACGCACACA
* *
470488 CGCACG--CGCA
1 CACACGCACACA
* * *
470498 CGCACGCGCACG
1 CACACGCACACA
* *
470510 CACGCGCACGCA
1 CACACGCACACA
* *
470522 CGCACGCACGCA
1 CACACGCACACA
* * * *
470534 CGCGCGCACGCG
1 CACACGCACACA
* *
470546 CGCGCGCACACA
1 CACACGCACACA
*
470558 CACACACACACA
1 CACACGCACACA
*
470570 CACACACACACA
1 CACACGCACACA
470582 CACAC
1 CACAC
470587 ATACATGATA
Statistics
Matches: 482, Mismatches: 75, Indels: 22
0.83 0.13 0.04
Matches are distributed among these distances:
10 17 0.04
11 8 0.02
12 443 0.92
13 1 0.00
14 3 0.01
16 10 0.02
ACGTcount: A:0.41, C:0.46, G:0.09, T:0.04
Consensus pattern (12 bp):
CACACGCACACA
Found at i:470488 original size:4 final size:4
Alignment explanation
Indices: 470481--470554 Score: 79
Period size: 4 Copynumber: 20.0 Consensus size: 4
470471 ACACACACAT
470481 GCAC GCAC GCAC G--C GCAC GCAC G--C GCAC GCAC G--C GCAC GCAC
1 GCAC GCAC GCAC GCAC GCAC GCAC GCAC GCAC GCAC GCAC GCAC GCAC
* * *
470523 GCAC GCAC GCAC GCGC GCAC GCGC GCGC GCAC
1 GCAC GCAC GCAC GCAC GCAC GCAC GCAC GCAC
470555 ACACACACAC
Statistics
Matches: 60, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
2 6 0.10
4 54 0.90
ACGTcount: A:0.19, C:0.50, G:0.31, T:0.00
Consensus pattern (4 bp):
GCAC
Found at i:470550 original size:10 final size:10
Alignment explanation
Indices: 470484--470546 Score: 94
Period size: 10 Copynumber: 6.3 Consensus size: 10
470474 CACACATGCA
470484 CGCACGCACG
1 CGCACGCACG
470494 CGCACGCACG
1 CGCACGCACG
470504 CGCACGCACG
1 CGCACGCACG
470514 CGCACGCACG
1 CGCACGCACG
470524 CACGCACGCACG
1 --CGCACGCACG
470536 CG--CGCACG
1 CGCACGCACG
470544 CGC
1 CGC
470547 GCGCGCACAC
Statistics
Matches: 50, Mismatches: 0, Indels: 7
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.16
10 32 0.64
12 10 0.20
ACGTcount: A:0.19, C:0.51, G:0.30, T:0.00
Consensus pattern (10 bp):
CGCACGCACG
Found at i:470557 original size:2 final size:2
Alignment explanation
Indices: 470552--470587 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
470542 CGCGCGCGCG
470552 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
470588 TACATGATAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:471090 original size:36 final size:37
Alignment explanation
Indices: 471030--471102 Score: 103
Period size: 36 Copynumber: 2.0 Consensus size: 37
471020 TGAGAATTTT
**
471030 AAAACAAATTTTTGTCTCGTTTGAGACAATTTCTCTC
1 AAAACAAATTTTCATCTCGTTTGAGACAATTTCTCTC
* *
471067 AAAACAAA-TTTCATCTCGTTTGAGACATTTTTTCTC
1 AAAACAAATTTTCATCTCGTTTGAGACAATTTCTCTC
471103 TGAGATACAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
36 24 0.75
37 8 0.25
ACGTcount: A:0.30, C:0.19, G:0.10, T:0.41
Consensus pattern (37 bp):
AAAACAAATTTTCATCTCGTTTGAGACAATTTCTCTC
Found at i:471294 original size:36 final size:35
Alignment explanation
Indices: 471254--471373 Score: 101
Period size: 36 Copynumber: 3.5 Consensus size: 35
471244 TCTTTCAATA
**
471254 TGTTTCTTTTGAAACAAAGCTTATTTTCCTTGAGAC
1 TGTTTCTCATGAAACAAA-CTTATTTTCCTTGAGAC
* *
471290 TGTTTCTTATGAAAC-AAC--AATTT--TTGAGA-
1 TGTTTCTCATGAAACAAACTTATTTTCCTTGAGAC
* *
471319 TCGTTTCTCTTAAAACAAATCTTATTTTCCTTGAGACC
1 T-GTTTCTCATGAAACAAA-CTTATTTTCCTTGAGA-C
471357 T-TTTCTCATGAAACAAA
1 TGTTTCTCATGAAACAAA
471374 AAATTATCTT
Statistics
Matches: 67, Mismatches: 8, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
29 1 0.01
30 17 0.25
31 2 0.03
32 5 0.07
34 5 0.07
35 2 0.03
36 34 0.51
38 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.42
Consensus pattern (35 bp):
TGTTTCTCATGAAACAAACTTATTTTCCTTGAGAC
Found at i:471672 original size:30 final size:31
Alignment explanation
Indices: 471608--471685 Score: 86
Period size: 30 Copynumber: 2.5 Consensus size: 31
471598 CTCTCTTGAG
* * * * * *
471608 AAAATATCTTTGAGTTTGTTTTTCTTGAAGC
1 AAAAAATCTTTGAGTCTGTTTCTATTAAAAC
471639 -AAAAATCTTTGAGTCTGTTTCTATTAAAAC
1 AAAAAATCTTTGAGTCTGTTTCTATTAAAAC
471669 AAAACAATCTTTGAGTC
1 AAAA-AATCTTTGAGTC
471686 ATTTCCTTTG
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
30 24 0.62
31 3 0.08
32 12 0.31
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (31 bp):
AAAAAATCTTTGAGTCTGTTTCTATTAAAAC
Found at i:471703 original size:31 final size:32
Alignment explanation
Indices: 471642--471703 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
471632 TTGAAGCAAA
*
471642 AATCTTTGAGTCTGTTTCTATTAAAACAAAAC
1 AATCTTTGAGTCTGTTCCTATTAAAACAAAAC
*
471674 AATCTTTGAGTCAT-TTCCT-TTGAAACAAAA
1 AATCTTTGAGTC-TGTTCCTATTAAAACAAAA
471704 TTTTATCTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 10 0.37
32 16 0.59
33 1 0.04
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (32 bp):
AATCTTTGAGTCTGTTCCTATTAAAACAAAAC
Found at i:471771 original size:29 final size:29
Alignment explanation
Indices: 471738--471823 Score: 118
Period size: 29 Copynumber: 3.0 Consensus size: 29
471728 TCTTAACAAA
471738 ATCATCTTTGAGTCTGTTTCTTTTGAAAC
1 ATCATCTTTGAGTCTGTTTCTTTTGAAAC
* * *
471767 ATCATCTTTGAATATGTTTCTTTTAAAAC
1 ATCATCTTTGAGTCTGTTTCTTTTGAAAC
* * *
471796 ATCAACTTTGAGTCAGTTTCATTTGAAA
1 ATCATCTTTGAGTCTGTTTCTTTTGAAA
471824 TCATTATCCC
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 48 1.00
ACGTcount: A:0.28, C:0.15, G:0.12, T:0.45
Consensus pattern (29 bp):
ATCATCTTTGAGTCTGTTTCTTTTGAAAC
Found at i:472226 original size:3 final size:3
Alignment explanation
Indices: 472220--472254 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
472210 TTTATTTAAT
472220 TTA TTA TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
472255 ACTTACATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:472243 original size:14 final size:14
Alignment explanation
Indices: 472224--472252 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
472214 TTTAATTTAT
472224 TATTATTATTATTA
1 TATTATTATTATTA
472238 TATTATTATTATTA
1 TATTATTATTATTA
472252 T
1 T
472253 TAACTTACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TATTATTATTATTA
Found at i:472243 original size:17 final size:17
Alignment explanation
Indices: 472221--472254 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
472211 TTATTTAATT
472221 TATTATTATTATTATTA
1 TATTATTATTATTATTA
472238 TATTATTATTATTATTA
1 TATTATTATTATTATTA
472255 ACTTACATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TATTATTATTATTATTA
Found at i:473992 original size:14 final size:14
Alignment explanation
Indices: 473973--474004 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
473963 TGAGTATAAC
473973 ATTAAATAAATGTT
1 ATTAAATAAATGTT
473987 ATTAAATAAATGTT
1 ATTAAATAAATGTT
474001 ATTA
1 ATTA
474005 TTTTATTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (14 bp):
ATTAAATAAATGTT
Found at i:476394 original size:28 final size:26
Alignment explanation
Indices: 476347--476422 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 26
476337 ATTAAAAAAT
*
476347 TTAAAATTTGATTAA-CAATTAATTCAA
1 TTAAAA-TTGATTAATTAATTAATT-AA
476374 TTCAAAATTGATTAATTAATTAAATTAA
1 TT-AAAATTGATTAATTAATT-AATTAA
*
476402 TTAAAAAT-ATTAATT-ATTAAT
1 TTAAAATTGATTAATTAATTAAT
476423 ATATATATAT
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
24 3 0.07
25 3 0.07
26 7 0.16
27 15 0.34
28 12 0.27
29 4 0.09
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (26 bp):
TTAAAATTGATTAATTAATTAATTAA
Found at i:476428 original size:2 final size:2
Alignment explanation
Indices: 476421--476452 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
476411 TTAATTATTA
476421 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
476453 TAAACTCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:479681 original size:2 final size:2
Alignment explanation
Indices: 479649--479673 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
479639 ATTTAATGAT
479649 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
479674 GAATATATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:481207 original size:189 final size:189
Alignment explanation
Indices: 480917--481307 Score: 674
Period size: 189 Copynumber: 2.1 Consensus size: 189
480907 ATATATTCAG
*
480917 GTCGGGTCGGGTTCTGGTTTAGGGTGAAAAAAACCAGACCGACCCGAAAATATATATAATTCAGG
1 GTCGGGTCGGGTTCGGGTTTAGGGTGAAAAAAACCAGACCGACCCGAAAATATATATAATTCAGG
*
480982 TCGGGTCAGATTAAGTCACTGTTTTTATTAAATAAAAATAATTTTTTATTATTTCGGGTTGGGTC
66 TCGGGTCAGATTAAGTCACTGTTTTTATTAAATAAAAATAATTTTTTATTATTTCGGGTCGGGTC
*
481047 GGGTTGAATTTCTAATTCATATATTCAGATCGGGTCGGATGAAACTTTATTTTGTTCGA
131 GGGTTGAATTTCTAATTCATATATTCAGATCGGGTCGGATGAAACATTATTTTGTTCGA
*
481106 GTCGGGTCGGGTTCGGGTTTAGGGTGAAAAAAACCGGACCGACCCGAAAATATATATAATTCAGG
1 GTCGGGTCGGGTTCGGGTTTAGGGTGAAAAAAACCAGACCGACCCGAAAATATATATAATTCAGG
* *
481171 TCGGGTCGGATTAAGTCACTGTTTTTATTAAATAAAAATATTTTTTTATTATTTCGGGTCGGGTC
66 TCGGGTCAGATTAAGTCACTGTTTTTATTAAATAAAAATAATTTTTTATTATTTCGGGTCGGGTC
* ** * * *
481236 GGGTTGGATTTCTAATTCATATATTTGGGTCGGGTCGGATGAAACATTATTTTGTTTGT
131 GGGTTGAATTTCTAATTCATATATTCAGATCGGGTCGGATGAAACATTATTTTGTTCGA
481295 GTCGGGTCGGGTT
1 GTCGGGTCGGGTT
481308 TTTTAAGTGT
Statistics
Matches: 190, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
189 190 1.00
ACGTcount: A:0.26, C:0.13, G:0.25, T:0.36
Consensus pattern (189 bp):
GTCGGGTCGGGTTCGGGTTTAGGGTGAAAAAAACCAGACCGACCCGAAAATATATATAATTCAGG
TCGGGTCAGATTAAGTCACTGTTTTTATTAAATAAAAATAATTTTTTATTATTTCGGGTCGGGTC
GGGTTGAATTTCTAATTCATATATTCAGATCGGGTCGGATGAAACATTATTTTGTTCGA
Found at i:481529 original size:37 final size:36
Alignment explanation
Indices: 481479--481548 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
481469 TTTTGTTCGG
*
481479 GTCGGCTCGGGTTTTTTAAGTGTAATATTCGGGTCGA
1 GTCGGCTCAGG-TTTTTAAGTGTAATATTCGGGTCGA
* *
481516 GTCGGGTCAGGTTTTTAAGTGTGATATTCGGGT
1 GTCGGCTCAGGTTTTTAAGTGTAATATTCGGGT
481549 TGGGTTTGGG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
36 21 0.70
37 9 0.30
ACGTcount: A:0.16, C:0.11, G:0.34, T:0.39
Consensus pattern (36 bp):
GTCGGCTCAGGTTTTTAAGTGTAATATTCGGGTCGA
Found at i:486781 original size:28 final size:28
Alignment explanation
Indices: 486718--486787 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
486708 CTAAAATGAA
* *
486718 ACACAGAGGTGCTAAGTCATTTTTAATT
1 ACACAGAGGTGTTAAGTCATTTTTAACT
*
486746 ACATAGAGGTGTTAAGTCATTTTTAACT
1 ACACAGAGGTGTTAAGTCATTTTTAACT
*
486774 GCACAGAGGTGTTA
1 ACACAGAGGTGTTA
486788 GTTTGTCGAT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.34
Consensus pattern (28 bp):
ACACAGAGGTGTTAAGTCATTTTTAACT
Found at i:486924 original size:56 final size:55
Alignment explanation
Indices: 486746--486931 Score: 164
Period size: 56 Copynumber: 3.4 Consensus size: 55
486736 ATTTTTAATT
* * *
486746 ACATAGAGGTG-TTAAGTCATTTTTAACTGCACAGAGGTGTTAGTTTGTCGATTGAA
1 ACATAGAGGTGCTCAA-TCATTTTTAACTGCACAGAGGT-ATAGTTTGTCGATTAAA
* * ** * * * * * *
486802 GCA-AAAGGTGCTCAATCA-TTACAA-AGCACTGAGGTAATAGATTCTAGACTAAA
1 ACATAGAGGTGCTCAATCATTTTTAACTGCACAGAGGT-ATAGTTTGTCGATTAAA
* * *
486855 GCACAGAGGTGCTCAATCATTTTTAACTGCACAAAGGTATCAGTTTGTCGATTAAA
1 ACATAGAGGTGCTCAATCATTTTTAACTGCACAGAGGTAT-AGTTTGTCGATTAAA
486911 ACATAGAGGTGCTCAATCATT
1 ACATAGAGGTGCTCAATCATT
486932 AATTCAAGCA
Statistics
Matches: 99, Mismatches: 26, Indels: 10
0.73 0.19 0.07
Matches are distributed among these distances:
53 23 0.23
54 18 0.18
55 15 0.15
56 43 0.43
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.30
Consensus pattern (55 bp):
ACATAGAGGTGCTCAATCATTTTTAACTGCACAGAGGTATAGTTTGTCGATTAAA
Found at i:487358 original size:197 final size:197
Alignment explanation
Indices: 486987--487376 Score: 739
Period size: 198 Copynumber: 2.0 Consensus size: 197
486977 TTTTTTTAGG
486987 CGGTGGTGCTTATTGTGTTGCAGTATAGAGGTACGACGAACAAAAAGGAATGGTTCGTACACGAA
1 CGGTGGTGCTTATTGTGTTG-AGTATAGAGGTACGACGAACAAAAAGGAATGGTTCGTACACGAA
487052 ATGGTGGATCAACAAGCTCTCACAGAGGTGAGGAACAAGAAGTTGCAGCGCCGGTCATACATGAG
65 ATGGTGGATCAACAAGCTCTCACAGAGGTGAGGAACAAGAAGTTGCAGCGCCGGTCATACATGAG
487117 AACGGGTTCTATGTATCAACAAAATTTATATGAGATTAAAGCCGCGCCAGTGACCCTTAGAGTAG
130 AACGGGTTCTATGTATCAACAAAATTTATATGAGATTAAAGCCGCGCCAGTGACCCTTAGAGTAG
487182 GCA
195 GCA
487185 CGGTGGTGCTTATTTGTGTTG-GTATAGAGGTACCGACGAACAAAAAGGAATGGTTCGTACACGA
1 CGGTGGTGCTTA-TTGTGTTGAGTATAGAGGTA-CGACGAACAAAAAGGAATGGTTCGTACACGA
487249 AATGGTGGATCAACAAGCTCTCACAGAGGTGAGGAACAAGAAGTTGCAGCGCCGGTCATACATGA
64 AATGGTGGATCAACAAGCTCTCACAGAGGTGAGGAACAAGAAGTTGCAGCGCCGGTCATACATGA
487314 G-ACGGGTTCTATGTATCAACAAAATTTATATGAGATTAAAGCCGCGCCAGTGACCCTTAGAGT
129 GAACGGGTTCTATGTATCAACAAAATTTATATGAGATTAAAGCCGCGCCAGTGACCCTTAGAGT
487377 TCATATGATA
Statistics
Matches: 190, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
197 73 0.38
198 109 0.57
199 8 0.04
ACGTcount: A:0.32, C:0.18, G:0.28, T:0.23
Consensus pattern (197 bp):
CGGTGGTGCTTATTGTGTTGAGTATAGAGGTACGACGAACAAAAAGGAATGGTTCGTACACGAAA
TGGTGGATCAACAAGCTCTCACAGAGGTGAGGAACAAGAAGTTGCAGCGCCGGTCATACATGAGA
ACGGGTTCTATGTATCAACAAAATTTATATGAGATTAAAGCCGCGCCAGTGACCCTTAGAGTAGG
CA
Found at i:494990 original size:21 final size:21
Alignment explanation
Indices: 494964--495010 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
494954 CTGGAAATGT
* *
494964 TAAAAAACATTAATGTTTTAGC
1 TAAAAAA-AATAATGTTTTAGA
494986 TAAAAAAAATAATGTTTTAGA
1 TAAAAAAAATAATGTTTTAGA
495007 TAAA
1 TAAA
495011 TATTTAACGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.53, C:0.04, G:0.09, T:0.34
Consensus pattern (21 bp):
TAAAAAAAATAATGTTTTAGA
Found at i:502158 original size:22 final size:22
Alignment explanation
Indices: 502133--502184 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
502123 GTATGAAAAT
502133 TATCGATACCCTATGGTAGA-GG
1 TATCGATACCCTAT-GTAGAGGG
* *
502155 TATCGATA-CTTATGTGGAGGG
1 TATCGATACCCTATGTAGAGGG
502176 TATCGATAC
1 TATCGATAC
502185 ATGGGGAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 4 0.15
21 14 0.54
22 8 0.31
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (22 bp):
TATCGATACCCTATGTAGAGGG
Found at i:505739 original size:21 final size:22
Alignment explanation
Indices: 505692--505743 Score: 72
Period size: 21 Copynumber: 2.4 Consensus size: 22
505682 TGTATGAATA
505692 GTATCGATACCATATGGTAGAG
1 GTATCGATACCATATGGTAGAG
*
505714 GTATCGATACC-TAT-GTGGAG
1 GTATCGATACCATATGGTAGAG
505734 GTTATCGATA
1 G-TATCGATA
505744 TATGGGGAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 6 0.21
21 11 0.39
22 11 0.39
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (22 bp):
GTATCGATACCATATGGTAGAG
Found at i:510579 original size:81 final size:81
Alignment explanation
Indices: 510480--510652 Score: 301
Period size: 81 Copynumber: 2.1 Consensus size: 81
510470 TATTGAAGAG
* *
510480 ATCTAATCATCTTTAGAAGATTTGATCCTTCACTCCAGGACATCAAATATGTGGGCAACATTGTT
1 ATCTAGTCATCTTTAGAAGATTTGATCCTTCACTCCAGGACATCAAATATGTGGACAACATTGTT
510545 CCGTCATGTTGAGGAC
66 CCGTCATGTTGAGGAC
* * *
510561 ATCTAGTCATCTTTAGAAGATTTGATCCTTCACTTCAGGACATCAAATCTGTGGACAACGTTGTT
1 ATCTAGTCATCTTTAGAAGATTTGATCCTTCACTCCAGGACATCAAATATGTGGACAACATTGTT
510626 CCGTCATGTTGAGGAC
66 CCGTCATGTTGAGGAC
510642 ATCTAGTCATC
1 ATCTAGTCATC
510653 GTCACACTTC
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
81 87 1.00
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.33
Consensus pattern (81 bp):
ATCTAGTCATCTTTAGAAGATTTGATCCTTCACTCCAGGACATCAAATATGTGGACAACATTGTT
CCGTCATGTTGAGGAC
Found at i:510644 original size:40 final size:40
Alignment explanation
Indices: 510516--510644 Score: 107
Period size: 40 Copynumber: 3.2 Consensus size: 40
510506 CCTTCACTCC
* *
510516 AGGACATCAAATATGTGGGCAACATTGTTCCGTCATGTTG
1 AGGACATCAAATCTGTGGACAACATTGTTCCGTCATGTTG
* * * ** * * * * * *
510556 AGGACATCTAGTCATCTTTAGAAGATTTGATCCTTCA-CTTC
1 AGGACATCAAATC-TGTGGACAACA-TTGTTCCGTCATGTTG
*
510597 AGGACATCAAATCTGTGGACAACGTTGTTCCGTCATGTTG
1 AGGACATCAAATCTGTGGACAACATTGTTCCGTCATGTTG
510637 AGGACATC
1 AGGACATC
510645 TAGTCATCGT
Statistics
Matches: 61, Mismatches: 25, Indels: 6
0.66 0.27 0.07
Matches are distributed among these distances:
39 9 0.15
40 25 0.41
41 18 0.30
42 9 0.15
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (40 bp):
AGGACATCAAATCTGTGGACAACATTGTTCCGTCATGTTG
Found at i:512017 original size:29 final size:28
Alignment explanation
Indices: 511960--512031 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 28
511950 ACTTATATAG
*
511960 AATTATCAAATATTTTTTTGAATAATAA
1 AATTATCAAATATTTTTTGGAATAATAA
*
511988 AATTATCAAATACTTTTTTGGGAA-ATTAA
1 AATTATCAAATA-TTTTTT-GGAATAATAA
512017 AATTATCAAATATTT
1 AATTATCAAATATTT
512032 AATCAAGGTT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 15 0.38
29 22 0.55
30 3 0.08
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (28 bp):
AATTATCAAATATTTTTTGGAATAATAA
Found at i:512670 original size:61 final size:61
Alignment explanation
Indices: 512528--512688 Score: 173
Period size: 61 Copynumber: 2.7 Consensus size: 61
512518 ATAGTCATGT
* * * *
512528 GATTATTTTATAAATTTTAATAGTCGAGGGACTCAAC-AAAGTAACTCCTTATAGTCAAGT
1 GATTATTTTATAACTTTTAATAGTCGAGGGACTCAACAAAAATAACTCCTTATAATCAAGA
*** * * * **
512588 GGCCATTTTGTATCTTTTAATAGTTGAGGGACTCAACAAAAATAACT-CTCTATAATTGAGA
1 GATTATTTTATAACTTTTAATAGTCGAGGGACTCAACAAAAATAACTCCT-TATAATCAAGA
**
512649 GATTATTTTATAACTTTTAATAGTCGATAGACTCAACAAA
1 GATTATTTTATAACTTTTAATAGTCGAGGGACTCAACAAA
512689 GTAGTATCAT
Statistics
Matches: 79, Mismatches: 20, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
60 32 0.41
61 47 0.59
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (61 bp):
GATTATTTTATAACTTTTAATAGTCGAGGGACTCAACAAAAATAACTCCTTATAATCAAGA
Found at i:514288 original size:16 final size:16
Alignment explanation
Indices: 514269--514302 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
514259 CAATATACGA
514269 ATAAAAATATATTTAT
1 ATAAAAATATATTTAT
**
514285 ATAAATGTATATTTAT
1 ATAAAAATATATTTAT
514301 AT
1 AT
514303 TTAGATGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
ATAAAAATATATTTAT
Found at i:514379 original size:14 final size:16
Alignment explanation
Indices: 514343--514379 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
514333 TATTAATGTA
514343 TGAATCATTTATATTTT
1 TGAAT-ATTTATATTTT
514360 TGAATATTT-TATTTT
1 TGAATATTTATATTTT
514375 T-AATA
1 TGAATA
514380 AGAAATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 4 0.20
15 7 0.35
16 4 0.20
17 5 0.25
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.59
Consensus pattern (16 bp):
TGAATATTTATATTTT
Found at i:515042 original size:130 final size:130
Alignment explanation
Indices: 514838--515085 Score: 424
Period size: 130 Copynumber: 1.9 Consensus size: 130
514828 AATTTTCTTC
* *
514838 TAATTAGGTGGTGACATGTGTCACCAATAACATATATCATGATCATGTGTTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
** *
514903 CCTGGTTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
* * *
514968 TAATTAGGTGGTGACATGTGTCACCAATGACACGTGTCATGATCATGTGCTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
515033 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
515086 TATATAAATA
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
130 110 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.36
Consensus pattern (130 bp):
TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
Found at i:515525 original size:35 final size:35
Alignment explanation
Indices: 515475--515550 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 35
515465 AATTGAATTT
* *
515475 AATTGAATTATTTTGGAATTTAGGGTTTAGAATGA
1 AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
*
515510 AATTGAATTACTTTGGAAATTGGGGTTTAGAATGA
1 AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
515545 AATTGA
1 AATTGA
515551 GGGCTATTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.36, C:0.01, G:0.24, T:0.39
Consensus pattern (35 bp):
AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
Found at i:518797 original size:17 final size:18
Alignment explanation
Indices: 518761--518798 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
518751 CAAAGATCAC
518761 TACATTGTCAGTTCTTATCG
1 TACATTGTCAG-T-TTATCG
518781 TACATTGTCAG-TTATCG
1 TACATTGTCAGTTTATCG
518798 T
1 T
518799 GGGGTTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
20 11 0.61
ACGTcount: A:0.21, C:0.18, G:0.16, T:0.45
Consensus pattern (18 bp):
TACATTGTCAGTTTATCG
Found at i:519410 original size:4 final size:4
Alignment explanation
Indices: 519401--519444 Score: 79
Period size: 4 Copynumber: 11.0 Consensus size: 4
519391 TAATATATGT
*
519401 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAC ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
519445 TTGAACAGTC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAA
Found at i:525984 original size:13 final size:13
Alignment explanation
Indices: 525968--526004 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
525958 TTTAATATTT
525968 ATCGGGCCGGGTA
1 ATCGGGCCGGGTA
*
525981 ATCGGGTCGGGTA
1 ATCGGGCCGGGTA
*
525994 ATCGGGGCGGG
1 ATCGGGCCGGG
526005 GATTACCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.14, C:0.19, G:0.51, T:0.16
Consensus pattern (13 bp):
ATCGGGCCGGGTA
Found at i:526368 original size:7 final size:7
Alignment explanation
Indices: 526356--526646 Score: 185
Period size: 7 Copynumber: 39.9 Consensus size: 7
526346 AATAAATATA
526356 ATATAAT
1 ATATAAT
526363 ATAT-A-
1 ATATAAT
526368 ATATAAT
1 ATATAAT
*
526375 -TCTAAT
1 ATATAAT
*
526381 ATATAACA
1 ATATAA-T
526389 ACTATAAT
1 A-TATAAT
*
526397 AGTATACT
1 A-TATAAT
* *
526405 CTATAACA
1 ATATAA-T
526413 ATATAA-
1 ATATAAT
526419 ATACTACGAT
1 ATA-TA--AT
526429 ATAT-AT
1 ATATAAT
526435 A-ATATAT
1 ATATA-AT
526442 ATATAAT
1 ATATAAT
526449 A-ATAAT
1 ATATAAT
526455 ATA-AAT
1 ATATAAT
526461 ACTATAAT
1 A-TATAAT
526469 ATAT-AT
1 ATATAAT
526475 A-ATAAT
1 ATATAAT
526481 ATAATAA-
1 AT-ATAAT
526488 ATATATAT
1 ATATA-AT
526496 ATTATAAT
1 A-TATAAT
526504 ATATAAT
1 ATATAAT
526511 ATATAAT
1 ATATAAT
*
526518 ATAATACT
1 AT-ATAAT
526526 ATAATAAT
1 AT-ATAAT
526534 AATATAAT
1 -ATATAAT
526542 ATATACTAT
1 ATATA--AT
526551 ATATATGAT
1 ATATA--AT
*
526560 ATATACT
1 ATATAAT
526567 ATATAAT
1 ATATAAT
526574 ATATAAT
1 ATATAAT
526581 ATACT-AT
1 ATA-TAAT
526588 ATATAAT
1 ATATAAT
526595 A-ATACACT
1 ATATA-A-T
*
526603 ATATATT
1 ATATAAT
526610 ATATAAT
1 ATATAAT
526617 ATACTATAT
1 ATA-TA-AT
*
526626 ACTATACT
1 A-TATAAT
526634 ATATAAT
1 ATATAAT
526641 ATATAA
1 ATATAA
526647 CATAAAAGGG
Statistics
Matches: 230, Mismatches: 20, Indels: 68
0.72 0.06 0.21
Matches are distributed among these distances:
5 8 0.03
6 36 0.16
7 96 0.42
8 50 0.22
9 35 0.15
10 5 0.02
ACGTcount: A:0.53, C:0.06, G:0.01, T:0.40
Consensus pattern (7 bp):
ATATAAT
Found at i:526434 original size:2 final size:2
Alignment explanation
Indices: 526427--526645 Score: 153
Period size: 2 Copynumber: 116.5 Consensus size: 2
526417 AAATACTACG
*
526427 AT AT AT AT A- AT AT AT AT AT A- AT A- AT A- AT AT AA AT ACT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
*
526466 A- AT AT AT AT A- AT A- AT AT A- AT AA AT AT AT AT AT -T AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
526502 AT AT AT A- AT AT AT A- AT AT A- AT ACT AT A- AT A- AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT
526539 A- AT AT AT ACT AT AT AT AT GAT AT AT ACT AT AT A- AT AT AT A-
1 AT AT AT AT A-T AT AT AT AT -AT AT AT A-T AT AT AT AT AT AT AT
*
526579 AT AT ACT AT AT AT A- AT A- AT AC ACT AT AT AT -T AT AT A- AT AT
1 AT AT A-T AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT
526619 ACT AT AT ACT AT ACT AT AT A- AT AT AT A
1 A-T AT AT A-T AT A-T AT AT AT AT AT AT A
526646 ACATAAAAGG
Statistics
Matches: 177, Mismatches: 6, Indels: 68
0.71 0.02 0.27
Matches are distributed among these distances:
1 24 0.14
2 134 0.76
3 19 0.11
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (2 bp):
AT
Found at i:526458 original size:5 final size:5
Alignment explanation
Indices: 526427--526643 Score: 116
Period size: 5 Copynumber: 42.0 Consensus size: 5
526417 AAATACTACG
*
526427 ATAT- ATATA ATATA TATATA ATAATA ATATA A-ATA CTATA ATATA TATAATA
1 ATATA ATATA ATATA -ATATA AT-ATA ATATA ATATA ATATA ATATA -AT-ATA
*
526479 ATATA ATA-A ATAT- ATATA TTATA ATAT- ATA-A TATATA ATAT- A-ATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA -ATATA ATATA ATATA
* *
526524 CTATA ATAATA ATATA ATATA TACTATA TATATG ATAT- ATACT- ATATAA
1 ATATA AT-ATA ATATA ATATA -A-TATA -ATATA ATATA ATA-TA ATAT-A
* *
526573 TATATA ATATA CTAT- ATATA ATAATA CACTAT- ATATT ATATA ATATA
1 -ATATA ATATA ATATA ATATA AT-ATA -A-TATA ATATA ATATA ATATA
*
526620 CTATATA CTATA CTATATA ATATA
1 --ATATA ATATA --ATATA ATATA
526644 TAACATAAAA
Statistics
Matches: 172, Mismatches: 12, Indels: 57
0.71 0.05 0.24
Matches are distributed among these distances:
3 2 0.01
4 29 0.17
5 87 0.51
6 28 0.16
7 25 0.15
8 1 0.01
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:526637 original size:19 final size:19
Alignment explanation
Indices: 526429--526645 Score: 191
Period size: 19 Copynumber: 11.4 Consensus size: 19
526419 ATACTACGAT
*
526429 ATATATAATATAT-ATATA
1 ATATATACTATATAATATA
* *
526447 ATAATAATA-TAAATACTATA
1 AT-AT-ATACTATATAATATA
526467 ATATATA-TA-ATAATATA
1 ATATATACTATATAATATA
* *
526484 ATAAATA-TATATATTATA
1 ATATATACTATATAATATA
*
526502 ATATATAATATATAATATA
1 ATATATACTATATAATATA
*
526521 ATACTATAATA-ATAATATA
1 ATA-TATACTATATAATATA
*
526540 ATATATACTATAT-ATATG
1 ATATATACTATATAATATA
526558 ATATATACTATATAATAT-
1 ATATATACTATATAATATA
526576 ATAATATACTATATATAATAATA
1 AT-ATATAC--TATATAAT-ATA
*
526599 CACTATATATTATATAATATA
1 -A-TATATACTATATAATATA
*
526620 CTATATACTATACT-ATATA
1 ATATATACTATA-TAATATA
526639 ATATATA
1 ATATATA
526646 ACATAAAAGG
Statistics
Matches: 170, Mismatches: 13, Indels: 31
0.79 0.06 0.14
Matches are distributed among these distances:
17 15 0.09
18 45 0.26
19 65 0.38
20 17 0.10
21 11 0.06
22 10 0.06
24 6 0.04
25 1 0.01
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.41
Consensus pattern (19 bp):
ATATATACTATATAATATA
Found at i:530376 original size:21 final size:21
Alignment explanation
Indices: 530339--530398 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
530329 TATAATGAAT
*
530339 GATCAAGTT-AAAGAATTAAAA
1 GATCAATTTGAAA-AATTAAAA
* *
530360 GATCAATTTGAAAAATTTAAT
1 GATCAATTTGAAAAATTAAAA
*
530381 GACCAATTTGAAAAATTA
1 GATCAATTTGAAAAATTA
530399 GTGAGCATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
21 30 0.91
22 3 0.09
ACGTcount: A:0.52, C:0.07, G:0.12, T:0.30
Consensus pattern (21 bp):
GATCAATTTGAAAAATTAAAA
Found at i:532877 original size:64 final size:63
Alignment explanation
Indices: 532809--533038 Score: 210
Period size: 64 Copynumber: 3.6 Consensus size: 63
532799 TTGAAACACT
* *** *
532809 TGATGCATCGGTGCACCAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAGAAATAGCC
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGA-AAAAAGCC
** * **
532873 TGATGCATCGATGCATGGCTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAAAATTC
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAAAAGCC
* * * * * * **
532937 AGAGTGCATCGATGCATGGAGAGTGCATCGATGCATGGAATGCATTGGATG-TTCAATTAATTCA
1 TGA-TGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAA-AAAAGC-
*
533001 T
63 C
* *
533002 TGATGCATCGATGCATGGACTGATGCATCGGTGCATG
1 TGATGCATCGATGCATGGAGTG-TGCATCGATGCATG
533039 CCTTTGAATA
Statistics
Matches: 135, Mismatches: 26, Indels: 9
0.79 0.15 0.05
Matches are distributed among these distances:
63 4 0.03
64 70 0.52
65 61 0.45
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (63 bp):
TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAAAGCC
Found at i:532961 original size:19 final size:19
Alignment explanation
Indices: 532937--532975 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
532927 GAAAAAATTC
532937 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
532956 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
532975 A
1 A
532976 ATGCATTGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.28, C:0.15, G:0.36, T:0.21
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:533029 original size:65 final size:65
Alignment explanation
Indices: 532831--533038 Score: 214
Period size: 65 Copynumber: 3.2 Consensus size: 65
532821 GCACCAAGTG
* * * *
532831 TGCATCGATGCATGAAATGCATTCGATGTTT-GAGAAATAGCCTGATGCATCGATGCATGG-CTT
1 TGCATCGATGCATGAAATGCATTCGATGTTTCAAAAAAT-TCATGATGCATCGATGCATGGAC-T
532894 G-
64 GA
* *
532895 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAAAATTCA-GAGTGCATCGATGCATGGA--
1 TGCATCGATGCATGAAATGCATTCGATG-TTTCAAAAAATTCATGA-TGCATCGATGCATGGACT
532957 GA
64 GA
* * **
532959 GTGCATCGATGCATGGAATGCATTGGATG-TTCAATTAATTCATTGATGCATCGATGCATGGACT
1 -TGCATCGATGCATGAAATGCATTCGATGTTTCAAAAAATTCA-TGATGCATCGATGCATGGACT
533023 GA
64 GA
*
533025 TGCATCGGTGCATG
1 TGCATCGATGCATG
533039 CCTTTGAATA
Statistics
Matches: 122, Mismatches: 12, Indels: 19
0.80 0.08 0.12
Matches are distributed among these distances:
63 11 0.09
64 45 0.37
65 59 0.48
66 7 0.06
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (65 bp):
TGCATCGATGCATGAAATGCATTCGATGTTTCAAAAAATTCATGATGCATCGATGCATGGACTGA
Found at i:538176 original size:22 final size:21
Alignment explanation
Indices: 538134--538173 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
538124 GAGTTTGTTT
*
538134 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
538155 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
538174 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:544874 original size:22 final size:22
Alignment explanation
Indices: 544849--544926 Score: 129
Period size: 22 Copynumber: 3.5 Consensus size: 22
544839 GTAAATATTT
*
544849 ATCCCGAAGGATCACTGGATAC
1 ATCCCGAAGGACCACTGGATAC
*
544871 ATCCCGAAGAACCACTGGATAC
1 ATCCCGAAGGACCACTGGATAC
544893 ATCCCGAAGGACCACTGGATAC
1 ATCCCGAAGGACCACTGGATAC
*
544915 GTCCCGAAGGAC
1 ATCCCGAAGGAC
544927 TACTATAAAC
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 52 1.00
ACGTcount: A:0.32, C:0.31, G:0.23, T:0.14
Consensus pattern (22 bp):
ATCCCGAAGGACCACTGGATAC
Found at i:545465 original size:21 final size:21
Alignment explanation
Indices: 545439--545478 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
545429 TTTTCATTTA
545439 GGGGGAATC-GATACCCCCTAG
1 GGGGGAATCTG-TACCCCCTAG
545460 GGGGGAATCTGTACCCCCT
1 GGGGGAATCTGTACCCCCT
545479 GCACATTCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.20, C:0.30, G:0.33, T:0.17
Consensus pattern (21 bp):
GGGGGAATCTGTACCCCCTAG
Found at i:550626 original size:6 final size:6
Alignment explanation
Indices: 550615--550649 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
550605 GATTACCAAA
550615 CCCGTC CCCGTC CCCGTC CCCGTC CCCGTC CCCGT
1 CCCGTC CCCGTC CCCGTC CCCGTC CCCGTC CCCGT
550650 TTAACATAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.66, G:0.17, T:0.17
Consensus pattern (6 bp):
CCCGTC
Found at i:550971 original size:5 final size:5
Alignment explanation
Indices: 550961--551268 Score: 125
Period size: 5 Copynumber: 56.6 Consensus size: 5
550951 ATATAACGTA
* *
550961 ATAAT ATAAT ATAAT ATAAAT ATAATT CTAAT AT-AT AACAACT ATAAT
1 ATAAT ATAAT ATAAT AT-AAT ATAA-T ATAAT ATAAT -ATAA-T ATAAT
* *
551009 AGT-AT ACTCTAT AACAAT ATAAT ACTACGAT ATATAT ATATAT ATAAT
1 A-TAAT A-T-AAT -ATAAT ATAAT A-TA--AT ATA-AT ATA-AT ATAAT
*
551057 ATAAT ATAA- ATACT ATAAT AT-AT ATATAT ATAAT ATATAT ATAAT AATAAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATA-AT ATAAT ATA-AT ATAAT -AT-AAT
*
551109 ATAAT AT-A- ATACT ATAAT AATAAT ATAATAT ATAAT ATAAT ATATACT
1 ATAAT ATAAT ATAAT ATAAT -ATAAT AT-A-AT ATAAT ATAAT ATA-A-T
* *
551157 ATATAT ATGAT AT-AT ACT-AT ATAATAT ATAAT ATACT AT-AT ATAAT
1 ATA-AT ATAAT ATAAT A-TAAT AT-A-AT ATAAT ATAAT ATAAT ATAAT
* *
551203 AATACACT AT-AT ATAAT AATACACT AT-AT ATTAT ATAAT ATACTAT ATACT
1 -ATA-A-T ATAAT ATAAT -ATA-A-T ATAAT ATAAT ATAAT ATA--AT ATAAT
551254 ATACTAT ATAAT ATA
1 ATA--AT ATAAT ATA
551269 TAACATAAAA
Statistics
Matches: 242, Mismatches: 19, Indels: 84
0.70 0.06 0.24
Matches are distributed among these distances:
3 2 0.01
4 23 0.10
5 113 0.47
6 61 0.25
7 37 0.15
8 6 0.02
ACGTcount: A:0.53, C:0.06, G:0.01, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:551009 original size:38 final size:39
Alignment explanation
Indices: 550961--551249 Score: 179
Period size: 36 Copynumber: 7.5 Consensus size: 39
550951 ATATAACGTA
**
550961 ATAATATAATATAATATAAATATAATTCTA-ATATATA-
1 ATAATATAATATAATATAAATATAATAATACATATATAT
* *
550998 ACAACTATAATAGTATACTCTATAACAATATAATACTACGATATATAT
1 ATAA-TATAATA-TA-A---TAT-A-AATATAATAATAC-ATATATAT
*
551046 ATATATATAATATAATATAAATACT-ATAATATATATATAT
1 ATA-ATATAATATAATATAAATA-TAATAATACATATATAT
551086 ATAATATATATATAATAATAAATATAAT-ATA-ATACTATA-
1 ATAATATA-ATATAAT-ATAAATATAATAATACATA-TATAT
551125 AT-A-ATAATATAATATATAATATAATATATAC-TATATAT
1 ATAATATAATATAATATA-AATATAATA-ATACATATATAT
*
551163 ATGATAT-ATACT-ATAT-AATAT-ATAAT--ATACTATAT
1 ATAATATAATA-TAATATAAATATAATAATACATA-TATAT
* *
551198 AT-A-ATAATACACTAT--ATATAATAATACACTATATAT
1 ATAATATAATATAATATAAATATAATAATACA-TATATAT
*
551234 -T-ATATAATATACTATA
1 ATAATATAATATAATATA
551250 TACTATACTA
Statistics
Matches: 209, Mismatches: 8, Indels: 70
0.73 0.03 0.24
Matches are distributed among these distances:
33 6 0.03
34 14 0.07
35 14 0.07
36 35 0.17
37 17 0.08
38 15 0.07
39 20 0.10
40 30 0.14
41 18 0.09
42 2 0.01
43 6 0.03
44 1 0.00
45 11 0.05
46 1 0.00
47 9 0.04
48 9 0.04
49 1 0.00
ACGTcount: A:0.53, C:0.06, G:0.01, T:0.39
Consensus pattern (39 bp):
ATAATATAATATAATATAAATATAATAATACATATATAT
Found at i:551045 original size:2 final size:2
Alignment explanation
Indices: 551038--551270 Score: 170
Period size: 2 Copynumber: 122.5 Consensus size: 2
551028 TAATACTACG
*
551038 AT AT AT AT AT AT AT AT A- AT AT A- AT AT AA AT ACT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT
*
551078 AT AT AT AT AT A- AT AT AT AT AT A- AT A- AT AA AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
551116 A- AT ACT AT A- AT A- AT A- AT AT A- AT AT AT A- AT AT A- AT AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
551152 AT ACT AT AT AT AT GAT AT AT ACT AT AT A- AT AT AT A- AT AT ACT
1 AT A-T AT AT AT AT -AT AT AT A-T AT AT AT AT AT AT AT AT AT A-T
* *
551194 AT AT AT A- AT A- AT AC ACT AT AT AT A- AT A- AT AC ACT AT AT AT
1 AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT A-T AT AT AT
551234 -T AT AT A- AT AT ACT AT AT ACT AT ACT AT AT A- AT AT AT A
1 AT AT AT AT AT AT A-T AT AT A-T AT A-T AT AT AT AT AT AT A
551271 ACATAAAAGG
Statistics
Matches: 189, Mismatches: 8, Indels: 68
0.71 0.03 0.26
Matches are distributed among these distances:
1 23 0.12
2 146 0.77
3 20 0.11
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.41
Consensus pattern (2 bp):
AT
Found at i:551262 original size:19 final size:18
Alignment explanation
Indices: 550961--551270 Score: 214
Period size: 19 Copynumber: 16.8 Consensus size: 18
550951 ATATAACGTA
550961 ATAATATAATATA-ATAT
1 ATAATATAATATATATAT
*
550978 A-AATATAATTCTAATATAT
1 ATAATATAA-TAT-ATATAT
* *
550997 AACAACTATAATAGTATACTCT
1 -ATAA-TATAATA-TATA-TAT
*
551019 AT-A-ACAATATA-ATACT
1 ATAATATAATATATATA-T
**
551035 ACGATAT-ATATATATAT
1 ATAATATAATATATATAT
*
551052 ATAATATAATATAAATACT
1 ATAATATAATATATATA-T
551071 ATAATATATATATATATAAT
1 ATAATATA-ATATATAT-AT
*
551091 ATATATATAATA-ATAAAT
1 ATA-ATATAATATATATAT
551109 ATAATATAATACTATA-AT
1 ATAATATAATA-TATATAT
551127 AATAATATAATATATA-AT
1 -ATAATATAATATATATAT
551145 ATAATAT-ATACTATATAT
1 ATAATATAATA-TATATAT
*
551163 ATGATATATACTATATAATAT
1 AT-A-ATATAATATAT-ATAT
*
551184 ATAATATACTATATATA-
1 ATAATATAATATATATAT
* *
551201 ATAATACACTATATATA-
1 ATAATATAATATATATAT
* *
551218 ATAATACACTATATATTAT
1 ATAATATAATATATA-TAT
*
551237 ATAATATACTATATACTAT
1 ATAATATAATATATA-TAT
551256 ACT-ATATAATATATA
1 A-TAATATAATATATA
551271 ACATAAAAGG
Statistics
Matches: 246, Mismatches: 18, Indels: 56
0.77 0.06 0.17
Matches are distributed among these distances:
15 1 0.00
16 13 0.05
17 67 0.27
18 40 0.16
19 71 0.29
20 25 0.10
21 21 0.09
22 8 0.03
ACGTcount: A:0.53, C:0.06, G:0.01, T:0.40
Consensus pattern (18 bp):
ATAATATAATATATATAT
Found at i:551363 original size:16 final size:17
Alignment explanation
Indices: 551338--551370 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
551328 ATCGTGTAAC
551338 AAAAATAGGACAAAGAT
1 AAAAATAGGACAAAGAT
*
551355 AAAAA-AGGACACAGAT
1 AAAAATAGGACAAAGAT
551371 TTTCGTTCGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.64, C:0.09, G:0.18, T:0.09
Consensus pattern (17 bp):
AAAAATAGGACAAAGAT
Found at i:552104 original size:78 final size:79
Alignment explanation
Indices: 551960--552111 Score: 225
Period size: 78 Copynumber: 1.9 Consensus size: 79
551950 TGAGCTGATA
* * *
551960 TCGAGTATTTTGGGCACGATATCATTCATCGTGAAGTTGAAATCGTGGATGACTCATTCGTCGTG
1 TCGAGTATCTTGGGCACGATATCACTCATCGTGAAGTTGAAATCGTGGATGACTCATTCATCGTG
552025 AAGTTGAGTCAATT
66 AAGTTGAGTCAATT
* * * * *
552039 TCGAGTGTCTTGGGCACGATATC-CTCATTGTGAAGTTGAAATCGTGGGTGACTCCTTCATTGTG
1 TCGAGTATCTTGGGCACGATATCACTCATCGTGAAGTTGAAATCGTGGATGACTCATTCATCGTG
552103 AAGTTGAGT
66 AAGTTGAGT
552112 TAAGATTGAA
Statistics
Matches: 65, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
78 44 0.68
79 21 0.32
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (79 bp):
TCGAGTATCTTGGGCACGATATCACTCATCGTGAAGTTGAAATCGTGGATGACTCATTCATCGTG
AAGTTGAGTCAATT
Found at i:554966 original size:20 final size:20
Alignment explanation
Indices: 554930--554988 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 20
554920 TATAATGAAT
*
554930 GATCAAGTT-AAAGAATTAAA
1 GATCAATTTGAAA-AATTAAA
*
554950 GATCAATTTGAAAAATTTAAT
1 GATCAATTTGAAAAA-TTAAA
*
554971 GACCAATTTGAAAAATTA
1 GATCAATTTGAAAAATTA
554989 GTGAGCATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 13 0.38
21 21 0.62
ACGTcount: A:0.51, C:0.07, G:0.12, T:0.31
Consensus pattern (20 bp):
GATCAATTTGAAAAATTAAA
Found at i:562162 original size:53 final size:53
Alignment explanation
Indices: 562051--562172 Score: 219
Period size: 54 Copynumber: 2.3 Consensus size: 53
562041 GTACCCCCTT
562051 GGGGGGGATCGGTTCCCTCGAGCATACTGGAATTCTCGGAACAAAACTGTTTA
1 GGGGGGGATCGGTTCCCTCGAGCATACTGGAATTCTCGGAACAAAACTGTTTA
562104 GGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAACAAAACTGTTTA
1 GGGGGGGATCGGTTCCCT-CGAGCATACTGGAATTCTCGGAACAAAACTGTTTA
*
562158 -GGGGGAATCGGTTCC
1 GGGGGGGATCGGTTCC
562173 TCCTATGGGG
Statistics
Matches: 67, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
53 32 0.48
54 35 0.52
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (53 bp):
GGGGGGGATCGGTTCCCTCGAGCATACTGGAATTCTCGGAACAAAACTGTTTA
Found at i:562281 original size:74 final size:76
Alignment explanation
Indices: 562104--562283 Score: 230
Period size: 73 Copynumber: 2.4 Consensus size: 76
562094 AAACTGTTTA
* ** *
562104 GGGGGGG-ATCGGTTCCCTCCGAGC-ATACTGGAATTCTCGGAACAAAACTGTTTAGGGGGAATC
1 GGGGGGGAATCGGTTCCCTCCGAGCAAT-CTGGAAATCTCGGAACAAAACCATTCAGGGGGAATC
562167 GGTTCCTCCTAT
65 GGTTCCTCCTAT
* * *
562179 ---GGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAGCCAAACCATTCAGGGGGAATC-
1 GGGGGGGAATCGGTTCCCTCCGAGCAATCTGGAAATCTCGGAACAAAACCATTCAGGGGGAATCG
562240 GTT-CTCCTAT
66 GTTCCTCCTAT
*
562250 GGGGGGGAATCGGTTCCCTCTGAGCAATCTGGAA
1 GGGGGGGAATCGGTTCCCTCCGAGCAATCTGGAA
562284 TTTTTGACTT
Statistics
Matches: 91, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
71 7 0.08
72 7 0.08
73 47 0.52
74 30 0.33
ACGTcount: A:0.22, C:0.24, G:0.31, T:0.24
Consensus pattern (76 bp):
GGGGGGGAATCGGTTCCCTCCGAGCAATCTGGAAATCTCGGAACAAAACCATTCAGGGGGAATCG
GTTCCTCCTAT
Found at i:562884 original size:17 final size:17
Alignment explanation
Indices: 562862--562905 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
562852 ATTCATAAAT
562862 CAAAATCCAACAATCCA
1 CAAAATCCAACAATCCA
*
562879 CAAAATCAAACAATCCA
1 CAAAATCCAACAATCCA
562896 -AAATATCCAA
1 CAAA-ATCCAA
562906 AATGTTGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 3 0.12
17 21 0.88
ACGTcount: A:0.57, C:0.30, G:0.00, T:0.14
Consensus pattern (17 bp):
CAAAATCCAACAATCCA
Done.