Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009620.1 Hibiscus syriacus cultivar Beakdansim tig00117009_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: 1051670
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 4
Found at i:289782 original size:56 final size:57
Alignment explanation
Indices: 289670--289783 Score: 221
Period size: 56 Copynumber: 2.0 Consensus size: 57
289660 ATGCATAACA
289670 TTATACAAAGATGTTTTATACATCATCGAGTAGGACTTGCGATAAGTATACCTTATC
1 TTATACAAAGATGTTTTATACATCATCGAGTAGGACTTGCGATAAGTATACCTTATC
289727 TTATACAAAGATGTTTTATACATCATCG-GTAGGACTTGCGATAAGTATACCTTATC
1 TTATACAAAGATGTTTTATACATCATCGAGTAGGACTTGCGATAAGTATACCTTATC
289783 T
1 T
289784 ACATTGGCAT
Statistics
Matches: 57, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
56 29 0.51
57 28 0.49
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (57 bp):
TTATACAAAGATGTTTTATACATCATCGAGTAGGACTTGCGATAAGTATACCTTATC
Found at i:294101 original size:23 final size:23
Alignment explanation
Indices: 294075--294120 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
294065 TCTGTCTTTA
294075 TGGCACATTTATCTCTACTTTTT
1 TGGCACATTTATCTCTACTTTTT
** * *
294098 TGGCATGTTTTTCTCTGCTTTTT
1 TGGCACATTTATCTCTACTTTTT
294121 GGTAGTTTAC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.11, C:0.20, G:0.13, T:0.57
Consensus pattern (23 bp):
TGGCACATTTATCTCTACTTTTT
Found at i:300542 original size:26 final size:27
Alignment explanation
Indices: 300513--300568 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
300503 GGATTTATAG
300513 AAATGCC-CTAAAGTGTAAAATAACCA
1 AAATGCCTCTAAAGTGTAAAATAACCA
*
300539 AAATGCCTCTAAAGTGTAAAATGACCA
1 AAATGCCTCTAAAGTGTAAAATAACCA
300566 AAA
1 AAA
300569 GTATTTCCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.50, C:0.18, G:0.12, T:0.20
Consensus pattern (27 bp):
AAATGCCTCTAAAGTGTAAAATAACCA
Found at i:303013 original size:35 final size:35
Alignment explanation
Indices: 302948--303014 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 35
302938 ATGGACATCA
* *
302948 TCAATAAAATAAGTAATTACTCAAAGAAAATTCAG
1 TCAATAAAATAAATAATTAATCAAAGAAAATTCAG
* *
302983 TCAATAAAATAAATAATTAATTAAATAAAATT
1 TCAATAAAATAAATAATTAATCAAAGAAAATT
303015 TGAATTTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.58, C:0.07, G:0.04, T:0.30
Consensus pattern (35 bp):
TCAATAAAATAAATAATTAATCAAAGAAAATTCAG
Found at i:306083 original size:77 final size:76
Alignment explanation
Indices: 305847--306083 Score: 189
Period size: 77 Copynumber: 3.1 Consensus size: 76
305837 CTTGAGTCAC
* * * *
305847 AAGTTCTTCTCATTATGAATTTCTTTGCTGGGA-AATT-TTGATCTACCTCCTTTTGTGATAGAT
1 AAGTTCTTCTCATTATGAAATTCTTTGCT---ATAATTGTTGCTCCACCTCCTTCTGTGATAGAT
*
305910 GAGCTAAGGTT-AAA
63 GAGC-AAAGTTGAAA
* * * ** * *
305924 CAAGTTCTTCTCATTAT-AAACTCTTT-C-ATTGGAAATGGTGCTCCAATTTCTTCTGTGATGGA
1 -AAGTTCTTCTCATTATGAAATTCTTTGCTA-T--AATTGTTGCTCCACCTCCTTCTGTGATAGA
** *
305986 TGAGCCAAAGCAGAAC
62 TGAG-CAAAGTTGAAA
* *
306002 AAGTTCTTCTTATTATGAAATTCTTTGCTATAATTGTTGCTCCACCTCCTTCTGTGGTAGATGAG
1 AAGTTCTTCTCATTATGAAATTCTTTGCTATAATTGTTGCTCCACCTCCTTCTGTGATAGATGAG
306067 TCAAAGTTGAAA
66 -CAAAGTTGAAA
306079 AAGTT
1 AAGTT
306084 TTTTATCGAA
Statistics
Matches: 121, Mismatches: 28, Indels: 21
0.71 0.16 0.12
Matches are distributed among these distances:
72 1 0.01
76 4 0.03
77 86 0.71
78 27 0.22
79 2 0.02
80 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (76 bp):
AAGTTCTTCTCATTATGAAATTCTTTGCTATAATTGTTGCTCCACCTCCTTCTGTGATAGATGAG
CAAAGTTGAAA
Found at i:307132 original size:10 final size:10
Alignment explanation
Indices: 307088--307132 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
307078 CCCCATTCAA
307088 TTTTTT-TTC
1 TTTTTTGTTC
307097 TCTTTTTAGTTC
1 T-TTTTT-GTTC
307109 TTTTTTGTTC
1 TTTTTTGTTC
307119 --TTTTGTTC
1 TTTTTTGTTC
307127 TTTTTT
1 TTTTTT
307133 CTTTCTTCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
8 8 0.26
9 1 0.03
10 13 0.42
11 5 0.16
12 4 0.13
ACGTcount: A:0.02, C:0.11, G:0.07, T:0.80
Consensus pattern (10 bp):
TTTTTTGTTC
Found at i:307138 original size:19 final size:19
Alignment explanation
Indices: 307090--307139 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
307080 CCATTCAATT
307090 TTTTTTCTCTT-TTTAGTTC
1 TTTTTTCT-TTCTTTAGTTC
* *
307109 TTTTTT-GTTCTTTTGTTC
1 TTTTTTCTTTCTTTAGTTC
307127 TTTTTTCTTTCTT
1 TTTTTTCTTTCTT
307140 CTTATTTTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 2 0.08
18 13 0.50
19 11 0.42
ACGTcount: A:0.02, C:0.14, G:0.06, T:0.78
Consensus pattern (19 bp):
TTTTTTCTTTCTTTAGTTC
Found at i:314389 original size:17 final size:17
Alignment explanation
Indices: 314364--314450 Score: 58
Period size: 16 Copynumber: 5.2 Consensus size: 17
314354 ACTTTTTAGA
*
314364 AAAAATTAAAAATATTT
1 AAAATTTAAAAATATTT
*
314381 AAAATTT-AAAAT-TTA
1 AAAATTTAAAAATATTT
*
314396 AGAACATTTAAAAAGA-TT
1 A-AA-ATTTAAAAATATTT
*
314414 -AAATATTAAAAA-AATT
1 AAAAT-TTAAAAATATTT
* *
314430 AAATTTTAAAAAAATTT
1 AAAATTTAAAAATATTT
314447 AAAA
1 AAAA
314451 AATATATATT
Statistics
Matches: 55, Mismatches: 7, Indels: 16
0.71 0.09 0.21
Matches are distributed among these distances:
15 6 0.11
16 25 0.45
17 19 0.35
18 5 0.09
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.33
Consensus pattern (17 bp):
AAAATTTAAAAATATTT
Found at i:314438 original size:42 final size:41
Alignment explanation
Indices: 314373--314451 Score: 104
Period size: 42 Copynumber: 1.9 Consensus size: 41
314363 AAAAAATTAA
* * * *
314373 AAATATTTAAAATTTAAAATTTAAGAACATTTAAAAAGATT
1 AAATATTAAAAAATTAAAATTTAAAAAAATTTAAAAAGATT
*
314414 AAATATTAAAAAAATTAAATTTTAAAAAAATTTAAAAA
1 AAATATT-AAAAAATTAAAATTTAAAAAAATTTAAAAA
314452 ATATATATTA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
41 7 0.22
42 25 0.78
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (41 bp):
AAATATTAAAAAATTAAAATTTAAAAAAATTTAAAAAGATT
Found at i:314594 original size:24 final size:23
Alignment explanation
Indices: 314562--314621 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 23
314552 TTATATTTTT
*
314562 TTATAAAATTGAAT-TAAATAAATA
1 TTATAAAATT-AATAAAAATAAA-A
*
314586 TTATAAAATATTATAAAAATAAAA
1 TTATAAAAT-TAATAAAAATAAAA
314610 TTATAAAATTAA
1 TTATAAAATTAA
314622 AATTTATGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 2 0.06
24 21 0.68
25 8 0.26
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (23 bp):
TTATAAAATTAATAAAAATAAAA
Found at i:314622 original size:14 final size:14
Alignment explanation
Indices: 314595--314625 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
314585 ATTATAAAAT
314595 ATTATAAAAATAAA
1 ATTATAAAAATAAA
*
314609 ATTATAAAATTAAA
1 ATTATAAAAATAAA
314623 ATT
1 ATT
314626 TATGTATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
ATTATAAAAATAAA
Found at i:318537 original size:11 final size:11
Alignment explanation
Indices: 318521--318554 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
318511 CAACACCTTG
318521 CATTGCATTTA
1 CATTGCATTTA
**
318532 CATTGCATCCA
1 CATTGCATTTA
318543 CATTGCATTTA
1 CATTGCATTTA
318554 C
1 C
318555 TTTTTCGCAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.09, T:0.38
Consensus pattern (11 bp):
CATTGCATTTA
Found at i:320756 original size:3 final size:3
Alignment explanation
Indices: 320748--320780 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
320738 CCCATTTTTA
*
320748 CTT CTT CTT CTT CTT CTT CTT CTT CTT ATT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
320781 GGTTCGTGAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.03, C:0.30, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:321761 original size:22 final size:22
Alignment explanation
Indices: 321708--321763 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
321698 GGTTCTACGC
* * * *
321708 GGTCATTCGAGACAATTTATGT
1 GGTCCTTCGGGACAATCTATAT
321730 GGTCCTTCGGGACAATCTATAT
1 GGTCCTTCGGGACAATCTATAT
321752 GGTCCTTCGGGA
1 GGTCCTTCGGGA
321764 TAAACTTCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.32
Consensus pattern (22 bp):
GGTCCTTCGGGACAATCTATAT
Found at i:324107 original size:18 final size:18
Alignment explanation
Indices: 324084--324119 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
324074 ATATTTTTTC
324084 ATTATTTATTT-ATTATAT
1 ATTA-TTATTTCATTATAT
324102 ATTATTATTTCATTATAT
1 ATTATTATTTCATTATAT
324120 TTTTGATATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (18 bp):
ATTATTATTTCATTATAT
Found at i:327675 original size:21 final size:22
Alignment explanation
Indices: 327648--327702 Score: 78
Period size: 21 Copynumber: 2.5 Consensus size: 22
327638 GCTTTGCCTG
327648 AAGAATGAAAAAGAAGAA-AAA
1 AAGAATGAAAAAGAAGAAGAAA
*
327669 ATGAATG-AAAAGAAGAAGAAA
1 AAGAATGAAAAAGAAGAAGAAA
327690 AAGAAATGAAAAA
1 AAG-AATGAAAAA
327703 AGGGAAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 10 0.34
21 11 0.38
22 4 0.14
23 4 0.14
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (22 bp):
AAGAATGAAAAAGAAGAAGAAA
Found at i:327688 original size:23 final size:21
Alignment explanation
Indices: 327650--327702 Score: 72
Period size: 20 Copynumber: 2.5 Consensus size: 21
327640 TTTGCCTGAA
327650 GAATGAAAAAGAAGAAAAAAT
1 GAATGAAAAAGAAGAAAAAAT
*
327671 GAATG-AAAAGAAGAAGAAAAA
1 GAATGAAAAAGAAGAA-AAAAT
327692 GAAATGAAAAA
1 G-AATGAAAAA
327703 AGGGAAAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 10 0.36
21 10 0.36
22 4 0.14
23 4 0.14
ACGTcount: A:0.72, C:0.00, G:0.21, T:0.08
Consensus pattern (21 bp):
GAATGAAAAAGAAGAAAAAAT
Found at i:327712 original size:18 final size:18
Alignment explanation
Indices: 327675--327788 Score: 74
Period size: 18 Copynumber: 6.3 Consensus size: 18
327665 AAAAATGAAT
*
327675 GAAAAG-AAGAAGAAAAA
1 GAAAAGAAAAAAGAAAAA
* **
327692 GAAATGAAAAAAGGGAAA
1 GAAAAGAAAAAAGAAAAA
* *
327710 GAAACGGAAAAAGAAAAA
1 GAAAAGAAAAAAGAAAAA
* *
327728 GAAAAGAAAATAA-ATAAT
1 GAAAAGAAAA-AAGAAAAA
*
327746 GAAAA-AAGAAAGAAATAA
1 GAAAAGAAAAAAGAAA-AA
327764 TGAAAA-AATAAAAGAAAAA
1 -GAAAAGAA-AAAAGAAAAA
327783 TGAAAA
1 -GAAAA
327789 AAATGAATGA
Statistics
Matches: 75, Mismatches: 16, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
16 2 0.03
17 10 0.13
18 39 0.52
19 17 0.23
20 7 0.09
ACGTcount: A:0.74, C:0.01, G:0.18, T:0.07
Consensus pattern (18 bp):
GAAAAGAAAAAAGAAAAA
Found at i:327754 original size:20 final size:20
Alignment explanation
Indices: 327729--327790 Score: 92
Period size: 19 Copynumber: 3.2 Consensus size: 20
327719 AAAGAAAAAG
*
327729 AAAAGAAAATAAATAATGAA
1 AAAAGAAAAGAAATAATGAA
327749 AAAAG-AAAGAAATAATGAA
1 AAAAGAAAAGAAATAATGAA
*
327768 AAAATAAAAGAAA-AATGAA
1 AAAAGAAAAGAAATAATGAA
327787 AAAA
1 AAAA
327791 ATGAATGAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
19 27 0.69
20 12 0.31
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.11
Consensus pattern (20 bp):
AAAAGAAAAGAAATAATGAA
Found at i:327757 original size:24 final size:22
Alignment explanation
Indices: 327651--327760 Score: 77
Period size: 23 Copynumber: 4.8 Consensus size: 22
327641 TTGCCTGAAG
*
327651 AATG-AAAAAG-AAGAAAAAATG
1 AATGAAAAAAGAAAGAAAAAA-A
*
327672 AATGAAAAGAAG-AAGAAAAAGA
1 AATGAAAA-AAGAAAGAAAAAAA
*
327694 AATGAAAAAAGGGAAAGAAACGGAAA
1 AATGAAAAAA--GAAAGAAA--AAAA
327720 AA-G-AAAAAGAAAAGAAAATAAA
1 AATGAAAAAAG-AAAGAAAA-AAA
327742 TAATGAAAAAAGAAAGAAA
1 -AATGAAAAAAGAAAGAAA
327761 TAATGAAAAA
Statistics
Matches: 72, Mismatches: 5, Indels: 21
0.73 0.05 0.21
Matches are distributed among these distances:
21 6 0.08
22 15 0.21
23 21 0.29
24 19 0.26
25 7 0.10
26 4 0.06
ACGTcount: A:0.73, C:0.01, G:0.20, T:0.06
Consensus pattern (22 bp):
AATGAAAAAAGAAAGAAAAAAA
Found at i:327761 original size:19 final size:19
Alignment explanation
Indices: 327729--327815 Score: 83
Period size: 19 Copynumber: 4.6 Consensus size: 19
327719 AAAGAAAAAG
*
327729 AAAAGAAAATAAATAATGAA
1 AAAAG-AAAGAAATAATGAA
327749 AAAAGAAAGAAATAATGAA
1 AAAAGAAAGAAATAATGAA
*
327768 AAAATAAAAGAAA-AATG-A
1 AAAA-GAAAGAAATAATGAA
* *
327786 AAAA-AATG-AATGAATGGA
1 AAAAGAAAGAAAT-AATGAA
327804 AAAAGAAAGAAA
1 AAAAGAAAGAAA
327816 AAGAGAATAA
Statistics
Matches: 57, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
15 2 0.04
16 3 0.05
17 4 0.07
18 10 0.18
19 24 0.42
20 14 0.25
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.11
Consensus pattern (19 bp):
AAAAGAAAGAAATAATGAA
Found at i:327761 original size:23 final size:21
Alignment explanation
Indices: 327651--327790 Score: 73
Period size: 19 Copynumber: 6.5 Consensus size: 21
327641 TTGCCTGAAG
327651 AATG-AAAAAG-AAGAAAAAA
1 AATGAAAAAAGAAAGAAAAAA
327670 TGAATGAAAAGAAG-AAGAAAAAGA
1 --AATGAAAA-AAGAAAGAAAAA-A
327694 AATGAAAAAAGGGAAAGAAACGGAAA
1 AATGAAAAAA--GAAAGAAA---AAA
327720 AA-G-AAAAAGAAAAGAAAATAAA
1 AATGAAAAAAG-AAAG-AAA-AAA
*
327742 TAATGAAAAAAGAAAG--AAAT
1 -AATGAAAAAAGAAAGAAAAAA
* *
327762 AATGAAAAAA-TAA-AAGAAA
1 AATGAAAAAAGAAAGAAAAAA
327781 AATGAAAAAA
1 AATGAAAAAA
327791 ATGAATGAAT
Statistics
Matches: 98, Mismatches: 5, Indels: 34
0.72 0.04 0.25
Matches are distributed among these distances:
18 2 0.02
19 22 0.22
20 2 0.02
21 7 0.07
22 15 0.15
23 18 0.18
24 20 0.20
25 7 0.07
26 3 0.03
27 2 0.02
ACGTcount: A:0.74, C:0.01, G:0.18, T:0.08
Consensus pattern (21 bp):
AATGAAAAAAGAAAGAAAAAA
Found at i:327792 original size:20 final size:18
Alignment explanation
Indices: 327717--327791 Score: 82
Period size: 19 Copynumber: 4.1 Consensus size: 18
327707 AAAGAAACGG
327717 AAAAAGAAAAA-GAAAAGA
1 AAAAAGAAAAATGAAAA-A
* *
327735 AAATA-AATAATGAAAAA
1 AAAAAGAAAAATGAAAAA
*
327752 AGAAAGAAATAATGAAAAA
1 AAAAAGAAA-AATGAAAAA
327771 ATAAAAGAAAAATGAAAAA
1 A-AAAAGAAAAATGAAAAA
327790 AA
1 AA
327792 TGAATGAATG
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
17 8 0.17
18 12 0.26
19 20 0.43
20 7 0.15
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (18 bp):
AAAAAGAAAAATGAAAAA
Found at i:329304 original size:134 final size:132
Alignment explanation
Indices: 329035--329343 Score: 417
Period size: 134 Copynumber: 2.3 Consensus size: 132
329025 AGAAAATTGA
* * *
329035 ACCT-GATTCAATCATCCCTGAGCAACAGTGGAGTGAATCAACGTCCCCAATCTGATTTTCCCTC
1 ACCTCGATTCAATCTTCCCTGAGCAACAGTGGAATGAATCAACGACCCCAATCTGATTTTCCCTC
*
329099 AGGAAAAAGTCGAACATATCCCTCACTTTCATATTTGATATTCCATGAGTAACAGTGGAACAAGT
66 AGGAAAAAGTCGAACATATCCCTCACTTTCAGATTTGATATTCCATGAGTAACAGTGGAACAAGT
329164 CT
131 CT
** *
329166 ACCTCGATTCAATCTTCCCTGAGTGACAGTGGAATGAATCAATGACCCCAGATCTGATTTTCCCT
1 ACCTCGATTCAATCTTCCCTGAGCAACAGTGGAATGAATCAACGACCCCA-ATCTGATTTTCCCT
* * * * *
329231 CTA-GAAAAAGTGGAACATATCTCTCTCTTTCAAGATTTGATATTCCCTGAGTATCAGTGGAACA
65 C-AGGAAAAAGTCGAACATATCCCTCACTTTC-AGATTTGATATTCCATGAGTAACAGTGGAACA
329295 AGTCT
128 AGTCT
* * * *
329300 ACCTCGATTTAATCTTCCCTAAAG-AATAGAGGAATGAATCAACG
1 ACCTCGATTCAATCTTCCCT-GAGCAACAGTGGAATGAATCAACG
329344 TTTATCGATC
Statistics
Matches: 155, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
131 4 0.03
132 39 0.25
133 40 0.26
134 70 0.45
135 2 0.01
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (132 bp):
ACCTCGATTCAATCTTCCCTGAGCAACAGTGGAATGAATCAACGACCCCAATCTGATTTTCCCTC
AGGAAAAAGTCGAACATATCCCTCACTTTCAGATTTGATATTCCATGAGTAACAGTGGAACAAGT
CT
Found at i:329634 original size:22 final size:22
Alignment explanation
Indices: 329606--329650 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
329596 CCTAAGTTAC
329606 AAACCCA-AGACCAACATACCCA
1 AAACCCAGAGACCAACA-ACCCA
*
329628 AAACCCAGAGCCCAACAACCCA
1 AAACCCAGAGACCAACAACCCA
329650 A
1 A
329651 CCCACCTGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.49, C:0.42, G:0.07, T:0.02
Consensus pattern (22 bp):
AAACCCAGAGACCAACAACCCA
Found at i:331944 original size:132 final size:128
Alignment explanation
Indices: 331743--331987 Score: 321
Period size: 132 Copynumber: 1.9 Consensus size: 128
331733 ATTAATCGAT
* * * * *
331743 TTTTAAGATGAAATAGTATCTCTTTATTTCAATTGGAGCAATAAATGAATGCTTTAAGGTATGAG
1 TTTTAAGATGAAATAATATCTCTTTATTTCAATTGGAGAAAAAAATGAATGCTTTAAGGCATGAA
* *
331808 AGGTCATTTATTCTCGATTGGAAATCATTAGATATTATCATTTTCACTTGAATCGATATTGAA
66 AGGTCATTTATTCTCGATTGAAAATAATTAGATATTATCATTTTCACTTGAATCGATATTGAA
* * * *
331871 TTTTAAGATGAAATATTAATATCTCTTTATTTCAGTTAGG-GTAAAAAAATGATTGTTTTAATGC
1 TTTTAAGATG-AA-A-TAATATCTCTTTATTTCAATT-GGAG-AAAAAAATGAATGCTTTAAGGC
* *
331935 ATGAAAGGTCATTTATTCTCGATTGAAAATAATTATATATTATCGTTTTCACT
61 ATGAAAGGTCATTTATTCTCGATTGAAAATAATTAGATATTATCATTTTCACT
331988 CTTAAAATTA
Statistics
Matches: 99, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
128 10 0.10
129 2 0.02
130 1 0.01
131 20 0.20
132 66 0.67
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.42
Consensus pattern (128 bp):
TTTTAAGATGAAATAATATCTCTTTATTTCAATTGGAGAAAAAAATGAATGCTTTAAGGCATGAA
AGGTCATTTATTCTCGATTGAAAATAATTAGATATTATCATTTTCACTTGAATCGATATTGAA
Found at i:337316 original size:189 final size:191
Alignment explanation
Indices: 336956--337363 Score: 561
Period size: 190 Copynumber: 2.1 Consensus size: 191
336946 ATACATAGTT
* *
336956 CTTTTGACTACTGCAAATTAAAAGATAATTTTTAATCTGAATATTAGTAGGATAATTACTCTTTT
1 CTTTTGACTATTGCAAATT-AAAGATAATTTTTAATCTGAATATTAGTAGGATAATTACTCTTTG
* * * * *
337021 AATAAGTCAATTTAAAAATGTATTTGATATCTTTTTAATTTTGAATATTATAAGATAATTATATA
65 AATAAGTCAACTTAAAAATGTATTTGATACCTATTTAACTTTGAATATTATAAAATAATTATATA
* ** *
337086 CTTTTGTATATTTCAAATTAAAATGATATCTGTTTAAGTTTGAATAGTAAGAGGAG-TTTAC
130 CTTTTGTATATTTCAAATTAAAATAATATCTACTTAAGTTTGAATAGTAAAAGGAGTTTTAC
* * * *
337147 CTTTTGACCATTGCAAATTAAATAT-ATTTTTAAATTTGAATATTAGTAGTATAATTACTCTTTG
1 CTTTTGACTATTGCAAATTAAAGATAATTTTT-AATCTGAATATTAGTAGGATAATTACTCTTTG
* *
337211 AATATGTCAACTTAAAAATGTATTTGTTACCTATTTAACTTTGAATATTA-AAAATAATTATATA
65 AATAAGTCAACTTAAAAATGTATTTGATACCTATTTAACTTTGAATATTATAAAATAATTATATA
* * * *
337275 CTTTTGTATATTTCAAATTAAAATAATATTTACTTAAGTTTGAATGGTAAAAGTAGTTTTAT
130 CTTTTGTATATTTCAAATTAAAATAATATCTACTTAAGTTTGAATAGTAAAAGGAGTTTTAC
* *
337337 CTTTTGAATATTTCAAATTAAAAGATA
1 CTTTTGACTATTGCAAATT-AAAGATA
337364 TTGTTATATG
Statistics
Matches: 188, Mismatches: 25, Indels: 7
0.85 0.11 0.03
Matches are distributed among these distances:
189 68 0.36
190 98 0.52
191 22 0.12
ACGTcount: A:0.38, C:0.07, G:0.10, T:0.44
Consensus pattern (191 bp):
CTTTTGACTATTGCAAATTAAAGATAATTTTTAATCTGAATATTAGTAGGATAATTACTCTTTGA
ATAAGTCAACTTAAAAATGTATTTGATACCTATTTAACTTTGAATATTATAAAATAATTATATAC
TTTTGTATATTTCAAATTAAAATAATATCTACTTAAGTTTGAATAGTAAAAGGAGTTTTAC
Found at i:341514 original size:17 final size:17
Alignment explanation
Indices: 341485--341519 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
341475 CACTAGCCCT
341485 AGCAAATTAAATTGTTTC
1 AGCAAATTAAATT-TTTC
341503 AGCAAA-TAAATTTTTC
1 AGCAAATTAAATTTTTC
341519 A
1 A
341520 CAGTCTTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 6 0.35
18 6 0.35
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.37
Consensus pattern (17 bp):
AGCAAATTAAATTTTTC
Found at i:342235 original size:101 final size:101
Alignment explanation
Indices: 342060--342242 Score: 303
Period size: 101 Copynumber: 1.8 Consensus size: 101
342050 TTATACTTCA
** * *
342060 AGGGGAGTCCTCTCATCACACAACCATCCCACACTCTAAGTGAAATGGAGCATATCTTCCACCCC
1 AGGGGAGTCAGCTCATCACACAACCATCCCACACTCTAAGTGAAAGGGAGCATACCTTCCACCCC
*
342125 CGAGCTAGTCAGGTAGATTGTTTTTAGCATAATTTT
66 CGAGCTAGTCAAGTAGATTGTTTTTAGCATAATTTT
* *
342161 AGGGGAGTCAGCTCATTACACTACCATCCCACACTCTAAGTGAAAGGGAGCATACCTTCCACCCC
1 AGGGGAGTCAGCTCATCACACAACCATCCCACACTCTAAGTGAAAGGGAGCATACCTTCCACCCC
342226 CGAGCTAGTCAAGTAGA
66 CGAGCTAGTCAAGTAGA
342243 GTCATCCCGT
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
101 75 1.00
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (101 bp):
AGGGGAGTCAGCTCATCACACAACCATCCCACACTCTAAGTGAAAGGGAGCATACCTTCCACCCC
CGAGCTAGTCAAGTAGATTGTTTTTAGCATAATTTT
Found at i:349544 original size:188 final size:187
Alignment explanation
Indices: 349145--349545 Score: 460
Period size: 188 Copynumber: 2.1 Consensus size: 187
349135 TTCATAGTCC
* *
349145 TATTGCAAATTAAAAGATAATT-TTTATTGAATATTAGTAGGATAATTACTCTTTTAATAATTCA
1 TATTGCAAATTAAAAGAT-ATTATTTATTAAATATTAGTAGG--AATTACTCTTTGAATAATTCA
* * * *
349209 ATTTTAAAAGGTAATTGTTATCTTTTTAATTTTGAATATTAAAAGATAATTATATACTTTTATAT
63 ACTTAAAAAGGTAATTGTTACCTTTTTAACTTTGAATATTAAAAGATAATTATATACTTTTATAT
** ** *
349274 ATTCAAATTAAAATATTTGTTTAAGTTTGAATGGGATGAATGGGAAAAGTTTATCTTTGAC
128 ATTCAAATTAAAATATTTACTTAAGTTTGAATGGGATGAAAAGG-AAAGTTTATCTTTGAA
* * *
349335 CATTGCAAATT-AAATATATTATTTAATTTAAATATTAGTAGG-ATTACTGTTTGAAT-ATGTCA
1 TATTGCAAATTAAAAGATATTATTT-A-TTAAATATTAGTAGGAATTACTCTTTGAATAAT-TCA
* * *
349397 ACTTAAAAAGGTATTTGTTACCTTTTTAACTTTGAATATT-AAAGATAATTATATACTTTTGTTT
63 ACTTAAAAAGGTAATTGTTACCTTTTTAACTTTGAATATTAAAAGATAATTATATACTTTTATAT
*
349461 ATTTCAAATTAAAATAATACTTACTTAAGTTTGAAT-GG-T-AAAAGG-AATTTTATCTTTTGAA
128 A-TTCAAATTAAAAT-AT--TTACTTAAGTTTGAATGGGATGAAAAGGAAAGTTTATC-TTTGAA
*
349522 TATTTCAAATTAAAAGATATTATT
1 TATTGCAAATTAAAAGATATTATT
349546 ATCTGTTTAA
Statistics
Matches: 180, Mismatches: 21, Indels: 22
0.81 0.09 0.10
Matches are distributed among these distances:
186 8 0.04
187 39 0.22
188 81 0.45
189 11 0.06
190 13 0.07
191 28 0.16
ACGTcount: A:0.39, C:0.06, G:0.11, T:0.45
Consensus pattern (187 bp):
TATTGCAAATTAAAAGATATTATTTATTAAATATTAGTAGGAATTACTCTTTGAATAATTCAACT
TAAAAAGGTAATTGTTACCTTTTTAACTTTGAATATTAAAAGATAATTATATACTTTTATATATT
CAAATTAAAATATTTACTTAAGTTTGAATGGGATGAAAAGGAAAGTTTATCTTTGAA
Found at i:350523 original size:96 final size:100
Alignment explanation
Indices: 350355--350549 Score: 353
Period size: 96 Copynumber: 2.0 Consensus size: 100
350345 ATTCATATGT
350355 TATAAACATGATTAAAATCATACCAATGTCAAACTATGATATAAAAATAATACAACCTACATACC
1 TATAAACATGATTAAAATCATACCAATGTCAAACTATGATATAAAAATAATACAACCTACATACC
350420 CCCTAATCACATGTAACGTACTTCACAAGCAACGA
66 CCCTAATCACATGTAACGTACTTCACAAGCAACGA
*
350455 TATAAACATGA-TAAAATCATACCAATGTCAAACTAT-A-A-AAACATAATACAACCTACATACC
1 TATAAACATGATTAAAATCATACCAATGTCAAACTATGATATAAAAATAATACAACCTACATACC
350516 CCCTAATCACATGTAACGTACTTCACAAGCAACG
66 CCCTAATCACATGTAACGTACTTCACAAGCAACG
350550 TCTATGGAAC
Statistics
Matches: 94, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
96 56 0.60
97 1 0.01
98 1 0.01
99 25 0.27
100 11 0.12
ACGTcount: A:0.46, C:0.24, G:0.07, T:0.23
Consensus pattern (100 bp):
TATAAACATGATTAAAATCATACCAATGTCAAACTATGATATAAAAATAATACAACCTACATACC
CCCTAATCACATGTAACGTACTTCACAAGCAACGA
Found at i:361833 original size:11 final size:13
Alignment explanation
Indices: 361807--361844 Score: 53
Period size: 11 Copynumber: 3.0 Consensus size: 13
361797 GCCTACTGCA
361807 TTATATGATATTT
1 TTATATGATATTT
361820 TTATAT-AT-TTT
1 TTATATGATATTT
361831 TTATATGAATATTT
1 TTATATG-ATATTT
361845 GACATATGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
11 9 0.41
12 2 0.09
13 8 0.36
14 3 0.14
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (13 bp):
TTATATGATATTT
Found at i:368533 original size:80 final size:81
Alignment explanation
Indices: 368394--368615 Score: 257
Period size: 81 Copynumber: 2.7 Consensus size: 81
368384 CAAAAGCCAT
* * **
368394 AATAGGGTTCATCTGTAGTGACATTTTTTCAACAAACGCCACAAAAGAGTAGTACTTTAG-GGTG
1 AATAGGGTTCATCTATAGTGACA--TTTTCAACAAACGCCACAATAGAGTAGTACTTTAGTGGCA
368458 TTTTTATAAAAACACCGC
64 TTTTTATAAAAACACCGC
* * * *
368476 AATAGGGTTCATCTATAGTGGCATTTTCAACAAACGCCATAATATAGTAGTAATTTAGTGGCATT
1 AATAGGGTTCATCTATAGTGACATTTTCAACAAACGCCACAATAGAGTAGTACTTTAGTGGCATT
* *** *
368541 TTTATACAAATGTCGT
66 TTTATAAAAACACCGC
* * *
368557 AATAGGGTTCATCTATAATGACGTTTTGTCAACAAACGCCGCAATAGAGTAGTACTTTA
1 AATAGGGTTCATCTATAGTGAC-ATTT-TCAACAAACGCCACAATAGAGTAGTACTTTA
368616 TAGTGGCGTT
Statistics
Matches: 117, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
80 31 0.26
81 35 0.30
82 24 0.21
83 27 0.23
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (81 bp):
AATAGGGTTCATCTATAGTGACATTTTCAACAAACGCCACAATAGAGTAGTACTTTAGTGGCATT
TTTATAAAAACACCGC
Found at i:369663 original size:31 final size:30
Alignment explanation
Indices: 369625--369690 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
369615 TGGTTGATAA
*
369625 ATAGAAAACCCTGTGATTGCTTTCAACAACT
1 ATAGAAAA-CCTATGATTGCTTTCAACAACT
** *
369656 ATAGAAAAGGTATGATTGCTTTCAACAATT
1 ATAGAAAACCTATGATTGCTTTCAACAACT
369686 ATAGA
1 ATAGA
369691 GCTGCACTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 23 0.74
31 8 0.26
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.30
Consensus pattern (30 bp):
ATAGAAAACCTATGATTGCTTTCAACAACT
Found at i:371361 original size:42 final size:43
Alignment explanation
Indices: 371292--371385 Score: 122
Period size: 41 Copynumber: 2.2 Consensus size: 43
371282 AAGGTAATTA
371292 GCGGCGTTTGTATCCAAAAAACACCGCTATAGATCT-GACCTTAT
1 GCGGCGTTTGTATCCAAAAAACACCGC--TAGATCTCGACCTTAT
* * *
371336 GCGGCGTTTGT-TCC-AAAAACGCCGCTAGATCTCGATCTTTT
1 GCGGCGTTTGTATCCAAAAAACACCGCTAGATCTCGACCTTAT
371377 GCGGCGTTT
1 GCGGCGTTT
371386 TTGGAATCTC
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
40 7 0.15
41 15 0.33
42 10 0.22
43 3 0.07
44 11 0.24
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.30
Consensus pattern (43 bp):
GCGGCGTTTGTATCCAAAAAACACCGCTAGATCTCGACCTTAT
Found at i:371544 original size:42 final size:43
Alignment explanation
Indices: 371449--371632 Score: 178
Period size: 42 Copynumber: 4.3 Consensus size: 43
371439 CCTTTTACAT
* *
371449 TTGACCTTTTGCGTCGTTTGTTCCAAAAACG-CAACTATAGATC
1 TTGACCTTTTGCGACGTTTGTTCCAAAAACGAC-ACTATAGATA
* ** * * * *
371492 TCGATGTTTTGTGGCGTTTGTTCC-AAAACGACGCTATAGTTA
1 TTGACCTTTTGCGACGTTTGTTCCAAAAACGACACTATAGATA
371534 TTGACCTTTTGCGACGTTTGTTCCAAAAAAC-ACCACTATAGATA
1 TTGACCTTTTGCGACGTTTGTTCC-AAAAACGA-CACTATAGATA
* * * * *
371578 TTGACCTTTTGCGACATTTGTTCC-AAAATGCCGCTATAGATC
1 TTGACCTTTTGCGACGTTTGTTCCAAAAACGACACTATAGATA
*
371620 TTGACCTATTGCG
1 TTGACCTTTTGCG
371633 GTGCTATTGC
Statistics
Matches: 115, Mismatches: 21, Indels: 11
0.78 0.14 0.07
Matches are distributed among these distances:
42 57 0.50
43 21 0.18
44 37 0.32
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (43 bp):
TTGACCTTTTGCGACGTTTGTTCCAAAAACGACACTATAGATA
Found at i:371601 original size:86 final size:85
Alignment explanation
Indices: 371449--371632 Score: 224
Period size: 86 Copynumber: 2.2 Consensus size: 85
371439 CCTTTTACAT
* * * ** * * *
371449 TTGACCTTTTGCGTCGTTTGTTCCAAAAACGCAACTATAGATCTCGATGTTTTGTGGCGTTTGTT
1 TTGACCTTTTGCGACGTTTGTTCCAAAAACACAACTATAGATATCGACCTTTTGCGACATTTGTT
*
371514 CCAAAACGACGCTATAGTTA
66 CCAAAACGACGCTATAGATA
* *
371534 TTGACCTTTTGCGACGTTTGTTCCAAAAAACACCACTATAGATATTGACCTTTTGCGACATTTGT
1 TTGACCTTTTGCGACGTTTGTTCC-AAAAACACAACTATAGATATCGACCTTTTGCGACATTTGT
* * *
371599 TCCAAAATGCCGCTATAGATC
65 TCCAAAACGACGCTATAGATA
*
371620 TTGACCTATTGCG
1 TTGACCTTTTGCG
371633 GTGCTATTGC
Statistics
Matches: 83, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
85 23 0.28
86 60 0.72
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (85 bp):
TTGACCTTTTGCGACGTTTGTTCCAAAAACACAACTATAGATATCGACCTTTTGCGACATTTGTT
CCAAAACGACGCTATAGATA
Found at i:372039 original size:17 final size:16
Alignment explanation
Indices: 372008--372039 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
371998 ATACAAAAAA
372008 TTAAATTATAAAACTC
1 TTAAATTATAAAACTC
372024 TTAAATTATCAAAACT
1 TTAAATTAT-AAAACT
372040 AATATTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (16 bp):
TTAAATTATAAAACTC
Found at i:376162 original size:19 final size:19
Alignment explanation
Indices: 376138--376174 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
376128 CTCGATCCAG
*
376138 ACCAGTCCAGTCGGTTAAA
1 ACCAGTCCAGCCGGTTAAA
376157 ACCAGTCCAGCCGGTTAA
1 ACCAGTCCAGCCGGTTAA
376175 CCGGTTCCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.30, G:0.22, T:0.19
Consensus pattern (19 bp):
ACCAGTCCAGCCGGTTAAA
Found at i:377157 original size:145 final size:145
Alignment explanation
Indices: 376994--377283 Score: 539
Period size: 145 Copynumber: 2.0 Consensus size: 145
376984 ATTTGTTTTA
376994 AATTTAATTTACCTCAATTATTTCATAAACTTTTAATTATTCTAGATAATAATTTTTTAATATTT
1 AATTTAATTTACCTCAATTATTTCATAAACTTTTAATTATTCTAGATAATAATTTTTTAATATTT
377059 TAAATTATTTATAATTTATCTAAATTTATTATAAATTTTTGTATG-GTTTTTCATAATTATTGAA
66 TAAATTATTTATAATTTATCTAAATTTATTATAAATTTTTGTATGTG-TTTTCATAATTATTGAA
377123 GGTAAC-TTTTTATCTT
130 GGT-ACTTTTTTATCTT
*
377139 AATTTAATTTACCTCAATTATTTCATAAACTTTTAATTATTCTAGATAATAATTTTTTATTATTT
1 AATTTAATTTACCTCAATTATTTCATAAACTTTTAATTATTCTAGATAATAATTTTTTAATATTT
377204 TAAATTATTTATAATTTATCTAAATTTATTATAAATTTTTGTATGTGTTTTCATAATTATTGAAG
66 TAAATTATTTATAATTTATCTAAATTTATTATAAATTTTTGTATGTGTTTTCATAATTATTGAAG
377269 GTACTTTTTTATCTT
131 GTACTTTTTTATCTT
377284 CCCTCTAATA
Statistics
Matches: 142, Mismatches: 1, Indels: 4
0.97 0.01 0.03
Matches are distributed among these distances:
144 2 0.01
145 139 0.98
146 1 0.01
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.54
Consensus pattern (145 bp):
AATTTAATTTACCTCAATTATTTCATAAACTTTTAATTATTCTAGATAATAATTTTTTAATATTT
TAAATTATTTATAATTTATCTAAATTTATTATAAATTTTTGTATGTGTTTTCATAATTATTGAAG
GTACTTTTTTATCTT
Found at i:378755 original size:193 final size:192
Alignment explanation
Indices: 378386--378914 Score: 673
Period size: 193 Copynumber: 2.8 Consensus size: 192
378376 ATTCGTGGCA
* * * *
378386 ATATAAATTATCAATAACAAAATTTTATATAATTTAGTGACATAACTATTTGTCATGGAATATAA
1 ATATAAATTATCAATAACAAAATTTTATATAATTTACTGACGTAACTAGTTGTCATTGAATATAA
* * * * *
378451 ATTATAAAGTG--ATGTT-ATGCATAA-GCATCATTCATAATATTATTAGGTAAC-ATTTATATT
66 ATTATAAAGTGACAT-TTAATGTATAATG--TCATTCATACTACTATTAGGTGACGA--TATACT
378511 ACGTCACTAAAAAAGTGACAATATCACTTTCGTCACATATAGGTTATTTTAATGTATTATATGTG
126 ACGTCAC-AAAAAAGTGACAATATCACTTTCGTCACATATAGGTTATTTTAATGTATTATATGTG
378576 ACG
190 ACG
* * * *
378579 ATATAAATTATCAATAACAAAATTTTATATAATTGACTGACGTACCTAGTTGTCGTTGAATATTA
1 ATATAAATTATCAATAACAAAATTTTATATAATTTACTGACGTAACTAGTTGTCATTGAATATAA
378644 ATTATAAAGTGACATTTAATGTA-AATGTCATTCATACTACTATTAGGTGACGATATACTACGTC
66 ATTATAAAGTGACATTTAATGTATAATGTCATTCATACTACTATTAGGTGACGATATACTACGTC
* * * * *
378708 ACAAAAAATGTGATAATATCACTTTCGTTATATATATGTTGATTTTAATGTATTATCTGTGACG
131 ACAAAAAA-GTGACAATATCACTTTCGTCACATATAGGTT-ATTTTAATGTATTATATGTGACG
* * * * * *
378772 ATATGAATTATAAATAACAAAAATTTATGTAATTTACTGATGTAACTAGTTGTCATCT-AATATC
1 ATATAAATTATCAATAACAAAATTTTATATAATTTACTGACGTAACTAGTTGTCAT-TGAATATA
*
378836 AATTATAAAGTGACA--TAATATATAATGTCATTCATACTACTATTAGGTGACGATATACTACGT
65 AATTATAAAGTGACATTTAATGTATAATGTCATTCATACTACTATTAGGTGACGATATACTACGT
*
378899 CAC-AAAATGTGACAAT
130 CACAAAAAAGTGACAAT
378915 TTTCTGTTCG
Statistics
Matches: 297, Mismatches: 30, Indels: 21
0.85 0.09 0.06
Matches are distributed among these distances:
190 7 0.02
191 16 0.05
192 82 0.28
193 179 0.60
194 6 0.02
195 7 0.02
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (192 bp):
ATATAAATTATCAATAACAAAATTTTATATAATTTACTGACGTAACTAGTTGTCATTGAATATAA
ATTATAAAGTGACATTTAATGTATAATGTCATTCATACTACTATTAGGTGACGATATACTACGTC
ACAAAAAAGTGACAATATCACTTTCGTCACATATAGGTTATTTTAATGTATTATATGTGACG
Found at i:379434 original size:38 final size:38
Alignment explanation
Indices: 379380--379455 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
379370 AAACACAAGA
* *
379380 AAGTCATGGGTCAAGCTCCATTATCTAATCCCAGAAAT
1 AAGTCAAGGGTAAAGCTCCATTATCTAATCCCAGAAAT
*
379418 AAGTCAAGGGTAAAGCTTCATTATCTAATCCCAGAAAT
1 AAGTCAAGGGTAAAGCTCCATTATCTAATCCCAGAAAT
379456 GTGTCATATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (38 bp):
AAGTCAAGGGTAAAGCTCCATTATCTAATCCCAGAAAT
Found at i:381009 original size:60 final size:60
Alignment explanation
Indices: 380916--381036 Score: 242
Period size: 60 Copynumber: 2.0 Consensus size: 60
380906 ACACGGTACC
380916 AACTTAGGGTTTTTCTTTGAAAAGGTTTTGAAATGTGAGGAGTTGCCACCAATCATTTTA
1 AACTTAGGGTTTTTCTTTGAAAAGGTTTTGAAATGTGAGGAGTTGCCACCAATCATTTTA
380976 AACTTAGGGTTTTTCTTTGAAAAGGTTTTGAAATGTGAGGAGTTGCCACCAATCATTTTA
1 AACTTAGGGTTTTTCTTTGAAAAGGTTTTGAAATGTGAGGAGTTGCCACCAATCATTTTA
381036 A
1 A
381037 GGTGTGATTG
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (60 bp):
AACTTAGGGTTTTTCTTTGAAAAGGTTTTGAAATGTGAGGAGTTGCCACCAATCATTTTA
Found at i:382894 original size:82 final size:83
Alignment explanation
Indices: 382735--382900 Score: 316
Period size: 84 Copynumber: 2.0 Consensus size: 83
382725 CCTAAAACCG
382735 AAAAAAACTAAAAAAACCCTCTCCTCTCTCTCTTGGTTAGCCCATTACCGGCCACCACACACCAC
1 AAAAAAACTAAAAAAACCCTCTCCTCTCTCTCTTGGTTAGCCCATTACCGGCCACCACACACCAC
382800 TGTTGCAGCCCCCATTCCA
66 TGTTG-AGCCCCCATTCCA
382819 AAAAAAACTAAAAAAACCCTCTCCTCTCTCTCTTGGTTAGCCCATTACCGGCCACCACACACCAC
1 AAAAAAACTAAAAAAACCCTCTCCTCTCTCTCTTGGTTAGCCCATTACCGGCCACCACACACCAC
382884 TGTTG-GCCCCCATTCCA
66 TGTTGAGCCCCCATTCCA
382901 TCGCCACACA
Statistics
Matches: 82, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
82 12 0.15
84 70 0.85
ACGTcount: A:0.30, C:0.39, G:0.10, T:0.22
Consensus pattern (83 bp):
AAAAAAACTAAAAAAACCCTCTCCTCTCTCTCTTGGTTAGCCCATTACCGGCCACCACACACCAC
TGTTGAGCCCCCATTCCA
Found at i:383626 original size:21 final size:21
Alignment explanation
Indices: 383601--383649 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
383591 AAAAAATAAT
383601 TAATAATTATTATTATTATCA
1 TAATAATTATTATTATTATCA
*
383622 TAATAATTATTATTATTATTA
1 TAATAATTATTATTATTATCA
383643 TAATAAT
1 TAATAAT
383650 AATAATAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (21 bp):
TAATAATTATTATTATTATCA
Found at i:383630 original size:18 final size:18
Alignment explanation
Indices: 383603--383637 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
383593 AAAATAATTA
*
383603 ATAATTATTATTATTATC
1 ATAATAATTATTATTATC
383621 ATAATAATTATTATTAT
1 ATAATAATTATTATTAT
383638 TATTATAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (18 bp):
ATAATAATTATTATTATC
Found at i:383648 original size:3 final size:3
Alignment explanation
Indices: 383642--383674 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
383632 TATTATTATT
383642 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
383675 GGTAGGTTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:383917 original size:42 final size:42
Alignment explanation
Indices: 383857--384005 Score: 131
Period size: 42 Copynumber: 3.5 Consensus size: 42
383847 ATGATGCTAA
* * * *
383857 TCCAAATCCATATGTGATGGATGAGCCAAGTATTGGTGATGT
1 TCCAACTCCTTATATGATGGATGAGCAAAGTATTGGTGATGT
* * * * *
383899 TCTAACTCCTTATGTGATGGAATCGAACAAAGTGA-TGAT-ACTGA
1 TCCAACTCCTTATATGATGG-AT-GAGCAAAGT-ATTGGTGA-TGT
* * * *
383943 TCCAACTCCATATACGATGGATGAGCTAAGTATTGGTGTTGT
1 TCCAACTCCTTATATGATGGATGAGCAAAGTATTGGTGATGT
383985 TCCAACTCCTTATATGATGGA
1 TCCAACTCCTTATATGATGGA
384006 ATCAATCGTA
Statistics
Matches: 83, Mismatches: 18, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
41 1 0.01
42 48 0.58
43 5 0.06
44 28 0.34
45 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.32
Consensus pattern (42 bp):
TCCAACTCCTTATATGATGGATGAGCAAAGTATTGGTGATGT
Found at i:383963 original size:86 final size:86
Alignment explanation
Indices: 383813--384010 Score: 261
Period size: 86 Copynumber: 2.3 Consensus size: 86
383803 GGAATGTTAA
* * * * * * **
383813 TCCACCTCCTTCTGTGATGGAGTCAAATAGAGTGATGATGCTAATCCAAATCCATATGTGATGGA
1 TCCAACTCCTTATGTGATGGAATCAAACAAAGTGATGATACTAATCCAAATCCATATACGATGGA
383878 TGAGCCAAGTATTGGTGATGT
66 TGAGCCAAGTATTGGTGATGT
* * * *
383899 TCTAACTCCTTATGTGATGGAATCGAACAAAGTGATGATACTGATCCAACTCCATATACGATGGA
1 TCCAACTCCTTATGTGATGGAATCAAACAAAGTGATGATACTAATCCAAATCCATATACGATGGA
* *
383964 TGAGCTAAGTATTGGTGTTGT
66 TGAGCCAAGTATTGGTGATGT
*
383985 TCCAACTCCTTATATGATGGAATCAA
1 TCCAACTCCTTATGTGATGGAATCAA
384011 TCGTAGTCTT
Statistics
Matches: 95, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
86 95 1.00
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.31
Consensus pattern (86 bp):
TCCAACTCCTTATGTGATGGAATCAAACAAAGTGATGATACTAATCCAAATCCATATACGATGGA
TGAGCCAAGTATTGGTGATGT
Found at i:384568 original size:234 final size:237
Alignment explanation
Indices: 384132--384591 Score: 590
Period size: 234 Copynumber: 2.0 Consensus size: 237
384122 ACCGATTTAT
* * * *
384132 TTTCTTACTTTTAAAAAAATTAGTTTTCAGATAAGATTAAAATGAGAAACTTTGAAAATTGCTTT
1 TTTCTTACTTTCAAAAAAATCAATTTTCAGAAAAGATTAAAATGAGAAACTTTGAAAATTGCTTT
* * *
384197 CTTAGTTTTCGAAAATCATGTGAGAACATCCTGCACATAAGCCTTAGGATGGCCTGAAAGATTTA
66 CTCAGTTTTCGAAAATCATGTGAGAACATCCTGCACATAAGCCTTAGGATGGCCCGAAAGACTTA
* * * **
384262 TCATCTTGCTCGAAATACTTAAAGATGACCTGAAGGATTTAAGCATTATGCTCGAAAGACTTACT
131 TCATCTTGCTCGAAAGACTTAAAGATAACCCGAAGGATTTAAGCACCATGCTCGAAAGACTTACT
*
384327 AATGGCCCGATGGACTTACTCAGT-AAGAAACTTTGGAAATCG
196 AATGGCCCGAGGGACTTACTCA-TCAAGAAACTTTGGAAATCG
* * *
384369 TTTCTTAC-TTCAAAAAAATCAATTTTCAGAAAATATTTAAATGAGAAACTTTGGAAATCT-CTT
1 TTTCTTACTTTCAAAAAAATCAATTTTCAGAAAAGATTAAAATGAGAAACTTTGAAAAT-TGCTT
* * * * * * * * *
384432 TCTCATTTTTTGAAAATCATGTTA-AACATCTTTC-GA-AGGTCTTATGGATGGCCCGAAGGACT
65 TCTCAGTTTTCGAAAATCATGTGAGAACATCCTGCACATAAGCCTTA-GGATGGCCCGAAAGACT
* * *
384494 TATGATCTTGGTCGAAAGACTTATAGATAACCCGAAGGATTTAAGCACCATGCTCGAAAGACTTA
129 TATCATCTTGCTCGAAAGACTTAAAGATAACCCGAAGGATTTAAGCACCATGCTCGAAAGACTTA
*
384559 CTGATGGCCCGAGGGACTTACTCATCAAGAAAC
194 CTAATGGCCCGAGGGACTTACTCATCAAGAAAC
384592 CCTTGAAAAC
Statistics
Matches: 191, Mismatches: 29, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
233 7 0.04
234 101 0.53
235 8 0.04
236 66 0.35
237 9 0.05
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.32
Consensus pattern (237 bp):
TTTCTTACTTTCAAAAAAATCAATTTTCAGAAAAGATTAAAATGAGAAACTTTGAAAATTGCTTT
CTCAGTTTTCGAAAATCATGTGAGAACATCCTGCACATAAGCCTTAGGATGGCCCGAAAGACTTA
TCATCTTGCTCGAAAGACTTAAAGATAACCCGAAGGATTTAAGCACCATGCTCGAAAGACTTACT
AATGGCCCGAGGGACTTACTCATCAAGAAACTTTGGAAATCG
Found at i:384570 original size:42 final size:41
Alignment explanation
Indices: 384472--384578 Score: 108
Period size: 42 Copynumber: 2.6 Consensus size: 41
384462 TTTCGAAGGT
* * * * *
384472 CTTATGGATGGCCCGAAGGACTTATGATCTTGGTCGAAAGA
1 CTTATAGATGGCCCGAAGGACTTAAGACCATGCTCGAAAGA
** *
384513 CTTATAGATAACCCGAAGGATTTAAGCACCATGCTCGAAAGA
1 CTTATAGATGGCCCGAAGGACTTAAG-ACCATGCTCGAAAGA
*
384555 CTTACT-GATGGCCCGAGGGACTTA
1 CTTA-TAGATGGCCCGAAGGACTTA
384579 CTCATCAAGA
Statistics
Matches: 52, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
41 21 0.40
42 30 0.58
43 1 0.02
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (41 bp):
CTTATAGATGGCCCGAAGGACTTAAGACCATGCTCGAAAGA
Found at i:386797 original size:54 final size:54
Alignment explanation
Indices: 386338--386797 Score: 643
Period size: 54 Copynumber: 8.5 Consensus size: 54
386328 TTTCATGGTT
* *
386338 TTGCACACATAGTTTCAATACGATAATTCACAAACTAATTATGAATTACTTAGG
1 TTGCACACATAGTGTCAATACGGTAATTCACAAACTAATTATGAATTACTTAGG
*** * * * *
386392 TTGCATGTATAGTGTCAATACAGTAATTCA-AACAATAATTAAGAATTACTTATG
1 TTGCACACATAGTGTCAATACGGTAATTCACAA-ACTAATTATGAATTACTTAGG
* *
386446 TTGTACACATAGTGTCAATACGGTAATTCACAAACTCATTATGAATTACTTAGG
1 TTGCACACATAGTGTCAATACGGTAATTCACAAACTAATTATGAATTACTTAGG
* * * *
386500 TTACATATATAGTGTCAATACGGTAACTCACAAACTAATTATGAATTACTTAGG
1 TTGCACACATAGTGTCAATACGGTAATTCACAAACTAATTATGAATTACTTAGG
* *
386554 TTACACACATAGTGCCAATACGGTAATTCACAAACTAATTATGAATTACTTAGG
1 TTGCACACATAGTGTCAATACGGTAATTCACAAACTAATTATGAATTACTTAGG
* * *
386608 TTGCACATATAGTGCCAATACGGTAATTCACAAACTCATTATGAATTACTTAGG
1 TTGCACACATAGTGTCAATACGGTAATTCACAAACTAATTATGAATTACTTAGG
* * *
386662 TTGCACACATAGTGCCAATACGATAATTCACAAACTCATTATGAATTACTTAGG
1 TTGCACACATAGTGTCAATACGGTAATTCACAAACTAATTATGAATTACTTAGG
* * **
386716 TTGCACACATAATGCCAATACAATAATTCACAAACTAATTATGAATTACTTAGG
1 TTGCACACATAGTGTCAATACGGTAATTCACAAACTAATTATGAATTACTTAGG
* *
386770 TTGTACACATAGTGTCAATATGGTAATT
1 TTGCACACATAGTGTCAATACGGTAATT
386798 GCAACATATA
Statistics
Matches: 362, Mismatches: 42, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
53 2 0.01
54 358 0.99
55 2 0.01
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (54 bp):
TTGCACACATAGTGTCAATACGGTAATTCACAAACTAATTATGAATTACTTAGG
Found at i:391494 original size:66 final size:65
Alignment explanation
Indices: 391388--391519 Score: 246
Period size: 66 Copynumber: 2.0 Consensus size: 65
391378 GGCATAAGTT
391388 ACAACTTTCCCTTCTTGCATAAGCACACATCCAAATCCATTATGAGATACATCACTAAAAAACTA
1 ACAACTTTCCCTTCTTGCATAAGCACACATCCAAATCCATTATGAGATACATCACT-AAAAACTA
391453 C
65 C
*
391454 ACAACTTTCCCTTCTTGCATAAGCACACATCCCAATCCATTATGAGATACATCACTAAAAACTAC
1 ACAACTTTCCCTTCTTGCATAAGCACACATCCAAATCCATTATGAGATACATCACTAAAAACTAC
391519 A
1 A
391520 TAATCTTTAC
Statistics
Matches: 65, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
65 10 0.15
66 55 0.85
ACGTcount: A:0.39, C:0.30, G:0.06, T:0.26
Consensus pattern (65 bp):
ACAACTTTCCCTTCTTGCATAAGCACACATCCAAATCCATTATGAGATACATCACTAAAAACTAC
Found at i:393593 original size:23 final size:21
Alignment explanation
Indices: 393567--393619 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
393557 ATATCACATG
*
393567 TTCATATAAGCTCATAGCTTCTT
1 TTCATATAA-CTCATAGCAT-TT
* * *
393590 TTCATGTAATTCATATCATTT
1 TTCATATAACTCATAGCATTT
393611 TTCATATAA
1 TTCATATAA
393620 TTCACATGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
21 10 0.40
22 7 0.28
23 8 0.32
ACGTcount: A:0.30, C:0.17, G:0.06, T:0.47
Consensus pattern (21 bp):
TTCATATAACTCATAGCATTT
Found at i:394235 original size:20 final size:23
Alignment explanation
Indices: 394212--394261 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 23
394202 GAAGTGAATT
394212 GATGCATTC-T-ACA-GTGCATC
1 GATGCATTCTTAACATGTGCATC
394232 GATGCATTCTTTAACATGTGCATC
1 GATGCATTC-TTAACATGTGCATC
394256 GATGCA
1 GATGCA
394262 CTACCCATGC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 9 0.35
22 1 0.04
23 3 0.12
24 13 0.50
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (23 bp):
GATGCATTCTTAACATGTGCATC
Found at i:394336 original size:64 final size:63
Alignment explanation
Indices: 394249--394389 Score: 153
Period size: 64 Copynumber: 2.2 Consensus size: 63
394239 TCTTTAACAT
* * *
394249 GTGCATCGATGCACTACCCATGCATCGATACACAAATT-ACCTTCGATGTTTTCAT-TTTAAAGG
1 GTGCATCGATGCACTACCCATGCATCAATACACAAATTGA-ATTCGATG-TTTCATCTTTAAAGA
* * * * *
394312 GATGCATCGATGCACT-CCTTATGCATCAATGCACCATTTGAATTCGATGTTTCTTCTTTAAAGA
1 G-TGCATCGATGCACTACC-CATGCATCAATACACAAATTGAATTCGATGTTTCATCTTTAAAGA
394376 GTGCATCGATGCAC
1 GTGCATCGATGCAC
394390 ATTAAATGTG
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
63 21 0.32
64 44 0.67
65 1 0.02
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (63 bp):
GTGCATCGATGCACTACCCATGCATCAATACACAAATTGAATTCGATGTTTCATCTTTAAAGA
Found at i:402303 original size:21 final size:19
Alignment explanation
Indices: 402276--402314 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
402266 TTTTTGGGTT
*
402276 TATAATAATATAT-ATATA
1 TATAATAATAAATAATATA
402294 TATAATAATAAATAATATA
1 TATAATAATAAATAATATA
402313 TA
1 TA
402315 GGTAGGTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
TATAATAATAAATAATATA
Found at i:406151 original size:23 final size:24
Alignment explanation
Indices: 406109--406157 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
406099 TGTGCCTTAG
* *
406109 TTCATTTGGTTAATGTTGGTCTCC
1 TTCAATTGGTTAATGATGGTCTCC
*
406133 TTCAATTGG-TAATGATGGTTTCC
1 TTCAATTGGTTAATGATGGTCTCC
406156 TT
1 TT
406158 TCTTCTTGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.16, C:0.14, G:0.20, T:0.49
Consensus pattern (24 bp):
TTCAATTGGTTAATGATGGTCTCC
Found at i:416607 original size:46 final size:46
Alignment explanation
Indices: 416486--416817 Score: 405
Period size: 43 Copynumber: 7.4 Consensus size: 46
416476 AAATGAATGA
* * *
416486 ATAAATGAAAATGGATAATGGTGCATTATCGGCATGAAATGATGCT
1 ATAAATGAAAATGCATAATGGTGCATTATCGGCATGAAAGGATGCC
* * * *
416532 ATATAATAAAAAATGCATAATGGTGCATTATCGGCATAAAAAGATGTC
1 ATA-AAT-GAAAATGCATAATGGTGCATTATCGGCATGAAAGGATGCC
416580 ATAAATGAAAATGCATAATGGTGCATTATCGGCATGAAAGG-TGCC
1 ATAAATGAAAATGCATAATGGTGCATTATCGGCATGAAAGGATGCC
* *
416625 ATAAATGAAAATGCATAATGGTGCATTA---GCATGAAATGATGTC
1 ATAAATGAAAATGCATAATGGTGCATTATCGGCATGAAAGGATGCC
*
416668 ATAAATGAAAATGCATAATGGTTCATTATCGGCATGAAAGGATGCC
1 ATAAATGAAAATGCATAATGGTGCATTATCGGCATGAAAGGATGCC
* * *
416714 AT-AA--AAAATGCATAACGGTGCATTATC--TATGAAAGGATTCC
1 ATAAATGAAAATGCATAATGGTGCATTATCGGCATGAAAGGATGCC
* * * *
416755 ATAAATGAATATGCATAA-GGTGCATAATTGACATGAAAGGATGCC
1 ATAAATGAAAATGCATAATGGTGCATTATCGGCATGAAAGGATGCC
**
416800 CCAAATGAAAATGCATAA
1 ATAAATGAAAATGCATAA
416818 CAATATATTA
Statistics
Matches: 248, Mismatches: 27, Indels: 23
0.83 0.09 0.08
Matches are distributed among these distances:
41 14 0.06
42 11 0.04
43 60 0.24
44 10 0.04
45 60 0.24
46 50 0.20
47 6 0.02
48 37 0.15
ACGTcount: A:0.42, C:0.12, G:0.20, T:0.26
Consensus pattern (46 bp):
ATAAATGAAAATGCATAATGGTGCATTATCGGCATGAAAGGATGCC
Found at i:416643 original size:45 final size:45
Alignment explanation
Indices: 416486--416817 Score: 358
Period size: 45 Copynumber: 7.4 Consensus size: 45
416476 AAATGAATGA
* * *
416486 ATAAATGAAAATGGATAATGGTGCATTATCGGCATGAAATGATGCT
1 ATAAATGAAAATGCATAATGGTGCATTATCGGCATGAAA-GGTGCC
* * * *
416532 ATATAATAAAAAATGCATAATGGTGCATTATCGGCATAAAAAGATGTC
1 ATA-AAT-GAAAATGCATAATGGTGCATTATCGGCAT-GAAAGGTGCC
416580 ATAAATGAAAATGCATAATGGTGCATTATCGGCATGAAAGGTGCC
1 ATAAATGAAAATGCATAATGGTGCATTATCGGCATGAAAGGTGCC
* *
416625 ATAAATGAAAATGCATAATGGTGCATTA---GCATGAAATGATGTC
1 ATAAATGAAAATGCATAATGGTGCATTATCGGCATGAAA-GGTGCC
*
416668 ATAAATGAAAATGCATAATGGTTCATTATCGGCATGAAAGGATGCC
1 ATAAATGAAAATGCATAATGGTGCATTATCGGCATGAAAGG-TGCC
* * *
416714 AT-AA--AAAATGCATAACGGTGCATTATC--TATGAAAGGATTCC
1 ATAAATGAAAATGCATAATGGTGCATTATCGGCATGAAAGG-TGCC
* * * *
416755 ATAAATGAATATGCATAA-GGTGCATAATTGACATGAAAGGATGCC
1 ATAAATGAAAATGCATAATGGTGCATTATCGGCATGAAAGG-TGCC
**
416800 CCAAATGAAAATGCATAA
1 ATAAATGAAAATGCATAA
416818 CAATATATTA
Statistics
Matches: 247, Mismatches: 26, Indels: 27
0.82 0.09 0.09
Matches are distributed among these distances:
41 14 0.06
42 10 0.04
43 61 0.25
44 10 0.04
45 65 0.26
46 44 0.18
47 6 0.02
48 34 0.14
49 3 0.01
ACGTcount: A:0.42, C:0.12, G:0.20, T:0.26
Consensus pattern (45 bp):
ATAAATGAAAATGCATAATGGTGCATTATCGGCATGAAAGGTGCC
Found at i:416686 original size:88 final size:89
Alignment explanation
Indices: 416486--416817 Score: 415
Period size: 88 Copynumber: 3.7 Consensus size: 89
416476 AAATGAATGA
* * * *
416486 ATAAATGAAAATGGATAATGGTGCATTATCGGCATGAAATGATGCTATATAATAAAAAATGCATA
1 ATAAATGAAAATGCATAATGGTGCATTATCGGCATGAAAGGATGCCATA-AAT-GAAAATGCATA
*
416551 ATGGTGCATTATCGGCATAAAAAGATGTC
64 ATGGTGCATTA---GCATGAAAAGATGTC
416580 ATAAATGAAAATGCATAATGGTGCATTATCGGCATGAAAGG-TGCCATAAATGAAAATGCATAAT
1 ATAAATGAAAATGCATAATGGTGCATTATCGGCATGAAAGGATGCCATAAATGAAAATGCATAAT
*
416644 GGTGCATTAGCATGAAATGATGTC
66 GGTGCATTAGCATGAAAAGATGTC
* *
416668 ATAAATGAAAATGCATAATGGTTCATTATCGGCATGAAAGGATGCCAT-AA--AAAATGCATAAC
1 ATAAATGAAAATGCATAATGGTGCATTATCGGCATGAAAGGATGCCATAAATGAAAATGCATAAT
* *
416730 GGTGCATTATCTATGAAAGGAT-TCC
66 GGTGCATTAGC-ATGAAAAGATGT-C
* * * * **
416755 ATAAATGAATATGCATAA-GGTGCATAATTGACATGAAAGGATGCCCCAAATGAAAATGCATAA
1 ATAAATGAAAATGCATAATGGTGCATTATCGGCATGAAAGGATGCCATAAATGAAAATGCATAA
416818 CAATATATTA
Statistics
Matches: 215, Mismatches: 17, Indels: 17
0.86 0.07 0.07
Matches are distributed among these distances:
86 45 0.21
87 29 0.13
88 55 0.26
89 17 0.08
91 21 0.10
92 3 0.01
93 6 0.03
94 39 0.18
ACGTcount: A:0.42, C:0.12, G:0.20, T:0.26
Consensus pattern (89 bp):
ATAAATGAAAATGCATAATGGTGCATTATCGGCATGAAAGGATGCCATAAATGAAAATGCATAAT
GGTGCATTAGCATGAAAAGATGTC
Found at i:418047 original size:74 final size:73
Alignment explanation
Indices: 417921--418067 Score: 260
Period size: 74 Copynumber: 2.0 Consensus size: 73
417911 TATTTATAGT
*
417921 TTAAAAAAACTTTTAAATCCAAAAAATGAAACCACCATTTTCTTCTAGAACCCCTAAACCCTCAT
1 TTAAAAAAACTTTTAAATCCAAAAAATGAAACCACCATTTTCTTCTAGAACCCCTAAACCCCCAT
417986 ACCCAAAC
66 ACCCAAAC
417994 TTAAAAAAACTTTTAAATCCAAAAAATGAAACCACCCATTTTCTTCT-GAAACCCCTAAACCCCC
1 TTAAAAAAACTTTTAAATCCAAAAAATGAAACCA-CCATTTTCTTCTAG-AACCCCTAAACCCCC
418058 ATACCCAAAC
64 ATACCCAAAC
418068 CAAAAACCCA
Statistics
Matches: 71, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
73 35 0.49
74 36 0.51
ACGTcount: A:0.44, C:0.30, G:0.03, T:0.24
Consensus pattern (73 bp):
TTAAAAAAACTTTTAAATCCAAAAAATGAAACCACCATTTTCTTCTAGAACCCCTAAACCCCCAT
ACCCAAAC
Found at i:418073 original size:73 final size:73
Alignment explanation
Indices: 417923--418073 Score: 252
Period size: 73 Copynumber: 2.1 Consensus size: 73
417913 TTTATAGTTT
*
417923 AAAAAAACTTTTAAATCCAAAAAATGAAACCACCATTTTCTTCTAGAACCCCTAAACCCTCATAC
1 AAAAAAACTTTTAAATCCAAAAAATGAAACCACCATTTTCTTCTAGAACCCCTAAACCCCCATAC
*
417988 CCAAACTT
66 CCAAACTC
417996 AAAAAAACTTTTAAATCCAAAAAATGAAACCACCCATTTTCTTCT-GAAACCCCTAAACCCCCAT
1 AAAAAAACTTTTAAATCCAAAAAATGAAACCA-CCATTTTCTTCTAG-AACCCCTAAACCCCCAT
418060 ACCCAAAC-C
64 ACCCAAACTC
418069 AAAAA
1 AAAAA
418074 CCCATTTCAC
Statistics
Matches: 74, Mismatches: 2, Indels: 4
0.93 0.03 0.05
Matches are distributed among these distances:
73 38 0.51
74 36 0.49
ACGTcount: A:0.46, C:0.30, G:0.03, T:0.22
Consensus pattern (73 bp):
AAAAAAACTTTTAAATCCAAAAAATGAAACCACCATTTTCTTCTAGAACCCCTAAACCCCCATAC
CCAAACTC
Found at i:419553 original size:27 final size:27
Alignment explanation
Indices: 419513--419587 Score: 98
Period size: 27 Copynumber: 2.7 Consensus size: 27
419503 TTGGACATAA
*
419513 AGAAATGACTAAAATACCCTTGAACT-
1 AGAAATGACTAAAATACCCCTGAACTG
* *
419539 ATGAAATGACCAAAATACCCCTGAAGTG
1 A-GAAATGACTAAAATACCCCTGAACTG
419567 AGAAATGACGTAAAATACCCC
1 AGAAATGAC-TAAAATACCCC
419588 CAAGCTCTGG
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
26 1 0.02
27 30 0.71
28 11 0.26
ACGTcount: A:0.45, C:0.21, G:0.15, T:0.19
Consensus pattern (27 bp):
AGAAATGACTAAAATACCCCTGAACTG
Found at i:421645 original size:17 final size:17
Alignment explanation
Indices: 421625--421661 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
421615 GGAAGTCAAC
421625 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
421642 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
421659 GGT
1 GGT
421662 TGGGTCAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.11, C:0.22, G:0.49, T:0.19
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:422782 original size:26 final size:26
Alignment explanation
Indices: 422701--422782 Score: 71
Period size: 26 Copynumber: 3.1 Consensus size: 26
422691 GGATGGTATC
422701 TCCTCAACATTGATACATGAAAGACA
1 TCCTCAACATTGATACATGAAAGACA
* * *
422727 TCATGAATACGACTTAGCT-CA-G-AAGACA
1 TCCT-CA-AC-A-TT-GATACATGAAAGACA
422755 TCCTCAACATTGATACATGAAAGACA
1 TCCTCAACATTGATACATGAAAGACA
422781 TC
1 TC
422783 ATGAATACGA
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
23 2 0.05
24 4 0.10
25 2 0.05
26 13 0.31
27 2 0.05
28 11 0.26
29 2 0.05
30 4 0.10
31 2 0.05
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.23
Consensus pattern (26 bp):
TCCTCAACATTGATACATGAAAGACA
Found at i:422783 original size:54 final size:54
Alignment explanation
Indices: 422701--422808 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
422691 GGATGGTATC
422701 TCCTCAACATTGATACATGAAAGACATCATGAATACGACTTAGCTCAGAAGACA
1 TCCTCAACATTGATACATGAAAGACATCATGAATACGACTTAGCTCAGAAGACA
422755 TCCTCAACATTGATACATGAAAGACATCATGAATACGACTTAGCTCAGAAGACA
1 TCCTCAACATTGATACATGAAAGACATCATGAATACGACTTAGCTCAGAAGACA
422809 ACTCAAGCTG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.41, C:0.22, G:0.15, T:0.22
Consensus pattern (54 bp):
TCCTCAACATTGATACATGAAAGACATCATGAATACGACTTAGCTCAGAAGACA
Found at i:427318 original size:85 final size:85
Alignment explanation
Indices: 427221--427392 Score: 344
Period size: 85 Copynumber: 2.0 Consensus size: 85
427211 AGCCTATGTG
427221 TTTCGACTAAATCTAGTGGATCACAAAGACATTTTCCAAAACCATTATCCAATCAATGTAAAATC
1 TTTCGACTAAATCTAGTGGATCACAAAGACATTTTCCAAAACCATTATCCAATCAATGTAAAATC
427286 ACATTATTCATGACATGAAA
66 ACATTATTCATGACATGAAA
427306 TTTCGACTAAATCTAGTGGATCACAAAGACATTTTCCAAAACCATTATCCAATCAATGTAAAATC
1 TTTCGACTAAATCTAGTGGATCACAAAGACATTTTCCAAAACCATTATCCAATCAATGTAAAATC
427371 ACATTATTCATGACATGAAA
66 ACATTATTCATGACATGAAA
427391 TT
1 TT
427393 ATAATAAATT
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 87 1.00
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (85 bp):
TTTCGACTAAATCTAGTGGATCACAAAGACATTTTCCAAAACCATTATCCAATCAATGTAAAATC
ACATTATTCATGACATGAAA
Found at i:428884 original size:5 final size:5
Alignment explanation
Indices: 428874--428916 Score: 61
Period size: 5 Copynumber: 8.8 Consensus size: 5
428864 AACGGTCAAC
* *
428874 GGTCG GGTCG GGTCG GGTC- AGTAG GGTCG GGTCG GGTCG GGTC
1 GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTC
428917 AGATCGGTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
4 2 0.06
5 31 0.94
ACGTcount: A:0.05, C:0.19, G:0.56, T:0.21
Consensus pattern (5 bp):
GGTCG
Found at i:430337 original size:32 final size:31
Alignment explanation
Indices: 430275--430353 Score: 86
Period size: 32 Copynumber: 2.5 Consensus size: 31
430265 CCTAAGGTGA
* *
430275 CCTTGGGTAGGCTCTGAGGCCCCAATGTACTT
1 CCTTGGGTAGGCTCTGAGGACCCAAGGTAC-T
* * *
430307 CCTTGTGTAGGCTCTTAGGACCTAAGGTACT
1 CCTTGGGTAGGCTCTGAGGACCCAAGGTACT
*
430338 CCTTTGGATAGGCTCT
1 CC-TTGGGTAGGCTCT
430354 CAAGCCCTAA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 3 0.08
32 36 0.92
ACGTcount: A:0.16, C:0.25, G:0.27, T:0.32
Consensus pattern (31 bp):
CCTTGGGTAGGCTCTGAGGACCCAAGGTACT
Found at i:431969 original size:79 final size:79
Alignment explanation
Indices: 431878--432036 Score: 309
Period size: 79 Copynumber: 2.0 Consensus size: 79
431868 TTATTATAGT
*
431878 AAGAAGTTACTTCTAATTGCTTATGTTATCATATGTTTTTTAGATAGTTTTATTTATGATATGAA
1 AAGAAGTGACTTCTAATTGCTTATGTTATCATATGTTTTTTAGATAGTTTTATTTATGATATGAA
431943 AAAGAATAGAACTG
66 AAAGAATAGAACTG
431957 AAGAAGTGACTTCTAATTGCTTATGTTATCATATGTTTTTTAGATAGTTTTATTTATGATATGAA
1 AAGAAGTGACTTCTAATTGCTTATGTTATCATATGTTTTTTAGATAGTTTTATTTATGATATGAA
432022 AAAGAATAGAACTG
66 AAAGAATAGAACTG
432036 A
1 A
432037 CTAGTTGATG
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 79 1.00
ACGTcount: A:0.36, C:0.06, G:0.16, T:0.42
Consensus pattern (79 bp):
AAGAAGTGACTTCTAATTGCTTATGTTATCATATGTTTTTTAGATAGTTTTATTTATGATATGAA
AAAGAATAGAACTG
Found at i:432842 original size:18 final size:19
Alignment explanation
Indices: 432800--432839 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
432790 TTTGGTTCAC
432800 GGAATGTAAGATTACCAGTG
1 GGAATGTAAGATTACCAG-G
*
432820 GGAATGTAAGATTATCAGG
1 GGAATGTAAGATTACCAGG
432839 G
1 G
432840 AATATGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.35, C:0.07, G:0.33, T:0.25
Consensus pattern (19 bp):
GGAATGTAAGATTACCAGG
Found at i:434877 original size:24 final size:24
Alignment explanation
Indices: 434850--434895 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
434840 GGTAAGCACG
434850 TATTTATTTTAAAATTTAATTTTT
1 TATTTATTTTAAAATTTAATTTTT
*
434874 TATTTATTTTAAAATTTTATTT
1 TATTTATTTTAAAATTTAATTT
434896 GTGTTTATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (24 bp):
TATTTATTTTAAAATTTAATTTTT
Found at i:439802 original size:2 final size:2
Alignment explanation
Indices: 439795--439839 Score: 81
Period size: 2 Copynumber: 22.0 Consensus size: 2
439785 TGAGAAAGAA
439795 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AGT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
439838 AT
1 AT
439840 TTAAATTGAA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 40 0.95
3 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:440517 original size:20 final size:20
Alignment explanation
Indices: 440473--440524 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
440463 AAAATATTTA
440473 TTTTAGATAACAAAATTAAT
1 TTTTAGATAACAAAATTAAT
*
440493 ATTTATGATAA-AAAA-TAACT
1 TTTTA-GATAACAAAATTAA-T
*
440513 TTTTAAATAACA
1 TTTTAGATAACA
440525 CTTTACTGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
19 7 0.27
20 14 0.54
21 5 0.19
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.38
Consensus pattern (20 bp):
TTTTAGATAACAAAATTAAT
Found at i:442041 original size:31 final size:31
Alignment explanation
Indices: 442006--442064 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
441996 AATATATAAT
* * *
442006 ATTTGATTATTTTCGTTTTTATTTAATTTAA
1 ATTTGATCACTTTCATTTTTATTTAATTTAA
442037 ATTTGATCACTTTCATTTTTATTTAATT
1 ATTTGATCACTTTCATTTTTATTTAATT
442065 AAGATGTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.25, C:0.07, G:0.05, T:0.63
Consensus pattern (31 bp):
ATTTGATCACTTTCATTTTTATTTAATTTAA
Found at i:444395 original size:22 final size:22
Alignment explanation
Indices: 444363--444404 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
444353 ACGGTCAACA
*
444363 GTCAACGGTCGGGTCGGGTCGG
1 GTCAACAGTCGGGTCGGGTCGG
444385 GTCAACAGTCGGGTCGGGTC
1 GTCAACAGTCGGGTCGGGTC
444405 AGTCGGGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.12, C:0.24, G:0.45, T:0.19
Consensus pattern (22 bp):
GTCAACAGTCGGGTCGGGTCGG
Found at i:444409 original size:14 final size:14
Alignment explanation
Indices: 444375--444420 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
444365 CAACGGTCGG
444375 GTCGGGTCGGGTCAACA
1 GTCGGGTCGGGT---CA
444392 GTCGGGTCGGGTCA
1 GTCGGGTCGGGTCA
*
444406 GTCGGGTTGGGTCA
1 GTCGGGTCGGGTCA
444420 G
1 G
444421 ACCGGTCAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 16 0.57
17 12 0.43
ACGTcount: A:0.11, C:0.20, G:0.48, T:0.22
Consensus pattern (14 bp):
GTCGGGTCGGGTCA
Found at i:444441 original size:19 final size:19
Alignment explanation
Indices: 444417--444533 Score: 101
Period size: 19 Copynumber: 6.1 Consensus size: 19
444407 TCGGGTTGGG
*
444417 TCAGACCGGTCAAACCGGT
1 TCAGACCGATCAAACCGGT
* * *
444436 TCAGACTGATTAAACTGGT
1 TCAGACCGATCAAACCGGT
*
444455 TCAAACCGATCGAAACCGGT
1 TCAGACCGATC-AAACCGGT
* *
444475 TGAAAACCGATCAAACCGGT
1 T-CAGACCGATCAAACCGGT
* *
444495 TCAGACCGGTCAAACTGGT
1 TCAGACCGATCAAACCGGT
* *
444514 TC-GAACCGGTCAAATCGGT
1 TCAG-ACCGATCAAACCGGT
444533 T
1 T
444534 TCCAGCCCTC
Statistics
Matches: 80, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
18 1 0.01
19 53 0.66
20 17 0.21
21 9 0.11
ACGTcount: A:0.31, C:0.26, G:0.23, T:0.21
Consensus pattern (19 bp):
TCAGACCGATCAAACCGGT
Found at i:444483 original size:21 final size:20
Alignment explanation
Indices: 444457--444495 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
444447 AAACTGGTTC
444457 AAACCGATCGAAACCGGTTGA
1 AAACCGATC-AAACCGGTTGA
444478 AAACCGATCAAACCGGTT
1 AAACCGATCAAACCGGTT
444496 CAGACCGGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.38, C:0.26, G:0.21, T:0.15
Consensus pattern (20 bp):
AAACCGATCAAACCGGTTGA
Found at i:454679 original size:25 final size:25
Alignment explanation
Indices: 454645--454698 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
454635 TCCTATCTCT
*
454645 CTGGGTCGGACCTGGCACTTGCTCA
1 CTGGGTCGGACCTGACACTTGCTCA
454670 CTGGGTCGGACCTGACACTTGCTCA
1 CTGGGTCGGACCTGACACTTGCTCA
454695 CTGG
1 CTGG
454699 ATCAGGTGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.13, C:0.31, G:0.31, T:0.24
Consensus pattern (25 bp):
CTGGGTCGGACCTGACACTTGCTCA
Found at i:454817 original size:2 final size:2
Alignment explanation
Indices: 454794--455104 Score: 192
Period size: 2 Copynumber: 169.0 Consensus size: 2
454784 AATAATAATA
* * *
454794 AT AT A- AT AT AT AC AT AT A- AT AT AT AT AA AT AT A- AC AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
454832 AT AT AT AT AT AT AT AT AT AT -T AG AT AT AT AT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
454872 AT A- AT AT AT A- ACT A- AT A- AT AT AT AT AT AT AT AT AT AT A-
1 AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
454910 AT AT A- AT AT AT ACT AT A- AT AT AT A- AT AT AT A- ACT A- AT A-
1 AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT A-T AT AT AT
* *
454948 AT AT AT AT AT A- AT AT AT GT AT AC A- AT A- AT 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
*
454986 AT A- ACT A- AT AT ACT AT AT AT AT A- AT AT -T A- AT TT AT -T AT
1 AT AT A-T AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
455024 A- AT CT AT AT ACT AT AT GAT GT AT -T AT AT A- AT A- AT A- AT AT
1 AT AT AT AT AT A-T AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT
455063 ACT -T AT AT CAT AT A- AT AT AT A- AT AT ACT AT AT A- AT A- AT
1 A-T AT AT AT -AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT
455101 AT AT
1 AT AT
455105 TAAATGTGTC
Statistics
Matches: 246, Mismatches: 16, Indels: 94
0.69 0.04 0.26
Matches are distributed among these distances:
1 37 0.15
2 193 0.78
3 16 0.07
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.43
Consensus pattern (2 bp):
AT
Found at i:454997 original size:100 final size:94
Alignment explanation
Indices: 454781--455086 Score: 283
Period size: 98 Copynumber: 3.1 Consensus size: 94
454771 AAATTAATTA
*
454781 AATAATA-ATAATAATATAATATATACATATA-ATATATATAA-ATATAAC-ATAATATAT-ATA
1 AATAATATATAATAATATAATATATATATATATATA-ATATAATATAT-ACTATAATATATAATA
* *
454841 TATATATATATTAGATATATATATATATTATAT
64 TATATA-ATATTATATATATA-ATATATTATAC
454874 AAT-ATATAACTAATAATAT-ATATATATATATATATAATATAATATATACTATAATATATAATA
1 AATAATAT-A-TAATAATATAATATATATATATATATAATATAATATATACTATAATATATAATA
*
454937 TATAACTAATAATATATATATAATATATGTATAC
64 TAT-A-TAATATTATATATATAATATAT-TATAC
* *
454971 AATAATATATAAT-ATATAACTAATATACTATATATATAATATTAAT-T-TATTATAATCTAT-A
1 AATAATATATAATAATATAA-T-ATATA-TATATATATAATA-TAATATATACTATAATATATAA
*
455032 TACTATATGATGTATTATATAATAATAATATACTTATATC
62 TA-TATAT-A-ATATTATAT-AT-ATAATATA-TTATA-C
455072 ATATAATATATAATA
1 A-ATAATATATAATA
455087 TACTATATAA
Statistics
Matches: 180, Mismatches: 8, Indels: 40
0.79 0.04 0.18
Matches are distributed among these distances:
92 3 0.02
93 3 0.02
94 21 0.12
95 29 0.16
96 18 0.10
97 27 0.15
98 32 0.18
99 16 0.09
100 16 0.09
101 3 0.02
102 12 0.07
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.42
Consensus pattern (94 bp):
AATAATATATAATAATATAATATATATATATATATAATATAATATATACTATAATATATAATATA
TATAATATTATATATATAATATATTATAC
Found at i:455016 original size:6 final size:7
Alignment explanation
Indices: 454782--455104 Score: 198
Period size: 7 Copynumber: 45.3 Consensus size: 7
454772 AATTAATTAA
454782 ATAATA-
1 ATAATAT
454788 ATAATAAT
1 ATAAT-AT
454796 ATAATAT
1 ATAATAT
454803 ATACATAT
1 ATA-ATAT
454811 A-ATATAT
1 ATA-ATAT
454818 ATAA-AT
1 ATAATAT
*
454824 AT-A-AC
1 ATAATAT
454829 ATAATAT
1 ATAATAT
454836 AT-ATAT
1 ATAATAT
454842 ATATATAT
1 ATA-ATAT
454850 ATTAGATAT
1 A-TA-ATAT
454859 AT-ATAT
1 ATAATAT
*
454865 ATATTAT
1 ATAATAT
454872 ATAATAT
1 ATAATAT
454879 ATAACTA-
1 ATAA-TAT
454886 ATAATAT
1 ATAATAT
454893 AT-ATAT
1 ATAATAT
454899 ATATATAT
1 ATA-ATAT
454907 ATAATAT
1 ATAATAT
454914 AATATATACT
1 -ATA-ATA-T
454924 ATAATAT
1 ATAATAT
454931 ATAATAT
1 ATAATAT
454938 ATAACTAAT
1 ATAA-T-AT
454947 AATATATAT
1 -ATA-ATAT
454956 ATAATAT
1 ATAATAT
* *
454963 ATGTATACA
1 AT-AATA-T
454972 ATAATAT
1 ATAATAT
454979 ATAATAT
1 ATAATAT
454986 ATAACTA-
1 ATAA-TAT
454993 AT-ATACT
1 ATAATA-T
455000 AT-ATAT
1 ATAATAT
455006 ATAATAT
1 ATAATAT
*
455013 -TAATTT
1 ATAATAT
*
455019 ATTATA-
1 ATAATAT
*
455025 AT-CTAT
1 ATAATAT
*
455031 ATACTAT
1 ATAATAT
* *
455038 ATGATGT
1 ATAATAT
455045 AT--TAT
1 ATAATAT
455050 ATAATA-
1 ATAATAT
455056 ATAATAT
1 ATAATAT
455063 ACTTATATCAT
1 A--TA-AT-AT
455074 ATAATAT
1 ATAATAT
455081 ATAATAT
1 ATAATAT
455088 ACT-ATAT
1 A-TAATAT
455095 AATAATAT
1 -ATAATAT
455103 AT
1 AT
455105 TAAATGTGTC
Statistics
Matches: 259, Mismatches: 18, Indels: 79
0.73 0.05 0.22
Matches are distributed among these distances:
5 12 0.05
6 49 0.19
7 112 0.43
8 52 0.20
9 23 0.09
10 7 0.03
11 4 0.02
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (7 bp):
ATAATAT
Found at i:455730 original size:79 final size:79
Alignment explanation
Indices: 455602--455752 Score: 198
Period size: 79 Copynumber: 1.9 Consensus size: 79
455592 GTTGTAGACA
* * * *
455602 ACTCCTTTGCCGTGAAGTTGAGTCGATATCAAGTGTATTGGGTACGATATCCTTCGTCATGAAGT
1 ACTCCTTCGCCGTGAAGTTGAGTCGATATCAAGTGTATTGAGCACGATATCCTTCATCATGAAGT
455667 TGAAATCGTGGGTG
66 TGAAATCGTGGGTG
* * * *
455681 ACTCCTTCGCCGTGAAGTTGAGTCGATCTTGAA-TG-ATTTGAGCATGATATCCTTCATCGTGAA
1 ACTCCTTCGCCGTGAAGTTGAGTCGAT-ATCAAGTGTA-TTGAGCACGATATCCTTCATCATGAA
455744 GTTGAAATC
64 GTTGAAATC
455753 AAGTTCGAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
78 1 0.02
79 58 0.94
80 3 0.05
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (79 bp):
ACTCCTTCGCCGTGAAGTTGAGTCGATATCAAGTGTATTGAGCACGATATCCTTCATCATGAAGT
TGAAATCGTGGGTG
Found at i:457896 original size:3 final size:3
Alignment explanation
Indices: 457888--458076 Score: 172
Period size: 3 Copynumber: 59.3 Consensus size: 3
457878 CGAATAAAAT
457888 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
457936 TAA TAA TAA TAA TAA TAA TATA TACA T-A TAA T-A TATA TAA -ATA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TA-A TAA TAA TAA TA-A TAA TA-A TAA
* *
457982 TAA TAA TAA TATA TAC TAAA TATA TATA TAC TATA TAA TATA TAA CTAA
1 TAA TAA TAA TA-A TAA T-AA TA-A TA-A TAA TA-A TAA TA-A TAA -TAA
*
458031 TAA TAA T-A TATA TAA TATA TAC T-A TAA TATA TAA TATA TAA CTAA
1 TAA TAA TAA TA-A TAA TA-A TAA TAA TAA TA-A TAA TA-A TAA -TAA
458076 T
1 T
458077 TTACTATAAA
Statistics
Matches: 160, Mismatches: 7, Indels: 38
0.78 0.03 0.19
Matches are distributed among these distances:
2 8 0.05
3 108 0.68
4 44 0.28
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:457971 original size:2 final size:2
Alignment explanation
Indices: 457953--458163 Score: 94
Period size: 2 Copynumber: 112.5 Consensus size: 2
457943 AATAATAATA
* *
457953 AT AT AT AC AT AT A- AT AT AT AT AA AT AT A- AT A- AT A- AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
457990 AT AT AT ACT AA AT AT AT AT AT ACT AT AT A- AT AT AT A- ACT A-
1 AT AT AT A-T AT AT AT AT AT AT A-T AT AT AT AT AT AT AT A-T AT
458030 AT A- AT A- AT AT AT AT A- AT AT AT ACT AT A- AT AT 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
* * *
458068 AT A- ACT A- AT TT ACT AT AA AT AT A- AT AT -T A- AT AT GT -T AT
1 AT AT A-T AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
458106 A- AT AT AT AT ACT AT AT A- AT A- AT A- AT AT ACT -T AT AT CAT
1 AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT A-T AT AT AT -AT
458144 AT CAT AT AT A- AT AT ACT AT A
1 AT -AT AT AT AT AT AT A-T AT A
458164 AAATAATATA
Statistics
Matches: 162, Mismatches: 11, Indels: 72
0.66 0.04 0.29
Matches are distributed among these distances:
1 25 0.15
2 118 0.73
3 19 0.12
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (2 bp):
AT
Found at i:458099 original size:40 final size:41
Alignment explanation
Indices: 457899--458174 Score: 185
Period size: 40 Copynumber: 6.8 Consensus size: 41
457889 AATAATAATA
*
457899 ATAATAATAATAATAATA-AT-AATAATA-ATAATA-ATAAT
1 ATAATAATAATAATAATATATAAATAATATATACTATA-AAT
*
457937 AATAATAATAATAATAATATATACAT-ATAATATA-TATAAAT
1 -ATAATAATAATAATAATATATAAATAAT-ATATACTATAAAT
457978 ATAATAATAATAAT-ATATACTAAATATATATATACTATATAAT
1 ATAATAATAATAATAATATA-TAAATA-ATATATACTATA-AAT
458021 AT-ATAACTAATAATAATATAT--ATAATATATACTATAATAT
1 ATAATAA-TAATAATAATATATAAATAATATATACTATAA-AT
*
458061 ATAATATATAACTAAT-TTACTATAAAT-ATA-ATA-T-TAATAT
1 ATAATA-ATAA-TAATAATA-TATAAATAATATATACTATAA-AT
* * * *
458101 GTTATAAT-ATATATACTATAT-AATAATAATATACTTATATCAT
1 ATAATAATAATA-ATAATATATAAATAAT-ATATAC-TATA-AAT
* *
458144 ATCATATATAAT-ATACTATA-AAATAATATAT
1 ATAATA-ATAATAATAATATATAAATAATATAT
458175 TAAATGTGTC
Statistics
Matches: 197, Mismatches: 9, Indels: 59
0.74 0.03 0.22
Matches are distributed among these distances:
37 5 0.03
38 8 0.04
39 29 0.15
40 51 0.26
41 25 0.13
42 30 0.15
43 38 0.19
44 9 0.05
45 2 0.01
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.39
Consensus pattern (41 bp):
ATAATAATAATAATAATATATAAATAATATATACTATAAAT
Found at i:458124 original size:90 final size:84
Alignment explanation
Indices: 457896--458158 Score: 243
Period size: 83 Copynumber: 3.2 Consensus size: 84
457886 ATTAATAATA
* *
457896 ATAATA-ATAATA-ATAATAATA-ATAAT-AATA-ATA-ATAATA-ATAATA-ATAA-TAATAAT
1 ATAATATATAATATATAATAATATATACTAAATATATATATACTATATAATATATAACTAATAAT
*
457952 AATATATACATATAATATA-T
66 AATATATATA-AT-ATATACT
457972 ATAA-ATATAATA-ATAATAATATATACTAAATATATATATACTATATAATATATAACTAATAAT
1 ATAATATATAATATATAATAATATATACTAAATATATATATACTATATAATATATAACTAATAAT
458035 AATATATATAATATATACT
66 AATATATATAATATATACT
* *
458054 ATAATATATAATATATAACTAATTTACTA-TAAATATAATATTAATA-TGTTATAATATATATAC
1 ATAATATATAATATATAA-TAATATA-TACTAAATAT-ATA-T-ATACT-ATATAATATATA-AC
*
458117 TATATAATAATA-ATATACT-TATATCAT
59 TA-ATAATAATATATATAATATATA-C-T
*
458144 ATCATATATAATATA
1 ATAATATATAATATA
458159 CTATAAAATA
Statistics
Matches: 159, Mismatches: 7, Indels: 28
0.82 0.04 0.14
Matches are distributed among these distances:
75 1 0.01
76 19 0.12
77 4 0.03
78 4 0.03
79 3 0.02
80 5 0.03
81 11 0.07
82 11 0.07
83 24 0.15
84 4 0.03
85 13 0.08
86 5 0.03
87 2 0.01
88 18 0.11
89 11 0.07
90 24 0.15
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (84 bp):
ATAATATATAATATATAATAATATATACTAAATATATATATACTATATAATATATAACTAATAAT
AATATATATAATATATACT
Found at i:458174 original size:24 final size:25
Alignment explanation
Indices: 457892--458174 Score: 133
Period size: 24 Copynumber: 11.4 Consensus size: 25
457882 TAAAATTAAT
457892 AATAATA-ATAATAATA-A-TAATAA
1 AATAATATATAATAATATACT-ATAA
457915 TAATAATA-ATAATAATA-A-TAATAA
1 -AATAATATATAATAATATACT-ATAA
*
457939 TAATAATA-ATAATAATATA-TA-CA
1 -AATAATATATAATAATATACTATAA
*
457962 TATAATATAT-ATAA-ATA-TAATAA
1 AATAATATATAATAATATACT-ATAA
*
457985 TAATAATATATACTAA-ATA-TAT-A
1 -AATAATATATAATAATATACTATAA
* *
458008 TATACTATATAAT-ATATAACTAATAA
1 AATAATATATAATAATAT-ACT-ATAA
458034 TAAT-ATATATAAT-ATATACTATAA
1 -AATAATATATAATAATATACTATAA
*
458058 TATATAATATATAACTAATTTACTATAA
1 -A-ATAATATATAA-TAATATACTATAA
* *
458086 ATATAATAT-TAATATGTTATAATAT-A
1 A-ATAATATATAATA--ATATACTATAA
*
458112 TATACTATATAATAATAATATACT-T-A
1 AATA--ATAT-ATAATAATATACTATAA
* *
458138 TATCATATCATATATAATATACTATAA
1 AATAATAT-ATA-ATAATATACTATAA
458165 AATAATATAT
1 AATAATATAT
458175 TAAATGTGTC
Statistics
Matches: 213, Mismatches: 21, Indels: 48
0.76 0.07 0.17
Matches are distributed among these distances:
21 5 0.02
22 23 0.11
23 6 0.03
24 66 0.31
25 31 0.15
26 33 0.15
27 34 0.16
28 10 0.05
29 5 0.02
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.39
Consensus pattern (25 bp):
AATAATATATAATAATATACTATAA
Found at i:458324 original size:18 final size:17
Alignment explanation
Indices: 458297--458331 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
458287 GCTTTTTGAA
458297 AATTTTATTTTAAAAAT
1 AATTTTATTTTAAAAAT
*
458314 AATTATTATTTTTAAAAT
1 AATT-TTATTTTAAAAAT
458332 TCTCCAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
AATTTTATTTTAAAAAT
Found at i:460191 original size:78 final size:77
Alignment explanation
Indices: 460065--460207 Score: 189
Period size: 78 Copynumber: 1.8 Consensus size: 77
460055 AGTTTCCCCA
* * * ** * *
460065 AATAATGTCGTGGTTCACTAAGAAATAGGTTGTGATATGTAATGTTAATA-TTTTTATTAATAAA
1 AATAATATCATGGTTCACTAAGAAAGAGGTTGCAATATGGAATCTTAATATTTTTTA-TAATAAA
460129 ACAGGTTAAACCC
65 ACAGGTTAAACCC
*
460142 AATAATATCATGGTTCACTAAGAAAGGAGGTTGCAATTTGGAATCTTAATATTTTTTATAATAAA
1 AATAATATCATGGTTCACTAAGAAA-GAGGTTGCAATATGGAATCTTAATATTTTTTATAATAAA
460207 A
65 A
460208 TGGGTTGTGC
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
77 23 0.41
78 27 0.48
79 6 0.11
ACGTcount: A:0.39, C:0.08, G:0.16, T:0.36
Consensus pattern (77 bp):
AATAATATCATGGTTCACTAAGAAAGAGGTTGCAATATGGAATCTTAATATTTTTTATAATAAAA
CAGGTTAAACCC
Found at i:460563 original size:14 final size:14
Alignment explanation
Indices: 460544--460571 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
460534 AGAGAAAAGC
460544 TGAAAATGTTATGA
1 TGAAAATGTTATGA
460558 TGAAAATGTTATGA
1 TGAAAATGTTATGA
460572 ATATATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.21, T:0.36
Consensus pattern (14 bp):
TGAAAATGTTATGA
Found at i:460691 original size:77 final size:76
Alignment explanation
Indices: 460604--460830 Score: 210
Period size: 77 Copynumber: 2.9 Consensus size: 76
460594 AGCCTCTACT
*
460604 AATGTCATGGTTCACTAAGAAATAGATTATCATATGTAATGTTAATATTTTTATTAATAAAATAT
1 AATGTCATGGTTCACTAAGAAATAG-TTATCATATGTAATGTTAATATTTTTATTAATAAAATAG
*
460669 GTTACT-CCTAAG
65 GTT-CTGCCCAAG
* * *
460681 AATGTTATGGTTCACTAAGAAAGTATGTTGCAATCTGTAATTTAATGTTAATATTTTT-TTAATA
1 AATGTCATGGTTCACTAAGAAA-TA-GTT---ATC-AT-ATGTAATGTTAATATTTTTATTAATA
*
460745 AAATAGGTTGTGCCCAAG
59 AAATAGGTTCTGCCCAAG
* * * * * *
460763 AATGTCATGGTTTTGAAT-AGAAATAGGTT-TGATGTGTTATATTAATATTTTTATTAATAAAAT
1 AATGTCATGG--TTCACTAAGAAATA-GTTATCATATGTAATGTTAATATTTTTATTAATAAAAT
460826 AGGTT
63 AGGTT
460831 GCGCCAAAAA
Statistics
Matches: 123, Mismatches: 16, Indels: 22
0.76 0.10 0.14
Matches are distributed among these distances:
76 15 0.12
77 37 0.30
78 5 0.04
79 1 0.01
81 4 0.03
82 34 0.28
83 23 0.19
84 4 0.03
ACGTcount: A:0.36, C:0.07, G:0.15, T:0.42
Consensus pattern (76 bp):
AATGTCATGGTTCACTAAGAAATAGTTATCATATGTAATGTTAATATTTTTATTAATAAAATAGG
TTCTGCCCAAG
Found at i:460713 original size:272 final size:262
Alignment explanation
Indices: 459946--460714 Score: 674
Period size: 264 Copynumber: 2.9 Consensus size: 262
459936 TAACATTTTA
* ** * * * ** ** * * *
459946 GGTTGCGCCTAAAAGGTTACCAGAGTTTAAGCAGATGGGGCCTTAGACATTCACATGATAAAAAA
1 GGTTACGCCTAAAAAATTATCAGAGTTTAAGCTGATAGAACCTTAGATTTTCCCACGATAAGAAA
* * ** * * *
460011 ATAAGTTAAAAGCTGAAAATATTATGAATATATATAAGAAA-CACAGTTTC--CCCAAATAATGT
66 ATAA-TTTAAAGATGAAAACGTTATGAAAATATATAAGAAATGAC-G-TACAGCCC-AATAATGT
* * * * * *
460073 CGTGGTTCACTAAGAAATAGGTTGTGATATGTAATGTTAATATTTTTATTAATAAAACAGGTTAA
127 CATGGTTCACTAAGAAATAGATTATCATATGTAATGTTAATATTTTTATTAATAAAATA-GTTAC
* * * * * *
460138 ACCCAATAATATCATGGTTCACTAAGAAAGGAGGTTGCAATTTGGAATCTTAATATTTTTTATAA
191 ACCTAAGAATGTCATGGTTCACTAAGAAAGTAGGTTGCAATATGGAATCTTAATATTTTTAATAA
460203 TAAAATG
256 TAAAATG
** ** * ** *
460210 GGTTGTGCCTAAAATGTTATTAGAGTTTAAGCTGATAGAGTCTTAGATTTTCCCACGGTAAGAAA
1 GGTTACGCCTAAAAAATTATCAGAGTTTAAGCTGATAGAACCTTAGATTTTCCCACGATAAGAAA
* ** *** *
460275 ATAATTTAAAAGCTGAAAACGTTATGAAAATATATAAGAAATGTGGTTTTGCCCAATAATGTTAT
66 ATAATTT-AAAGATGAAAACGTTATGAAAATATATAAGAAATGACGTACAGCCCAATAATGTCAT
* * * * * *
460340 GGTTCACTAAGAAATAAATTA-CAATCTGTAATTTTAATATTTTTATTAATAAAGTAGGT-CGCA
130 GGTTCACTAAGAAATAGATTATC-ATATGTAATGTTAATATTTTTATTAATAAAATAGTTACAC-
** *
460403 CTCAAGAATGTCACAGTTTACTAAGAAA-TCAGGTTGCAATATGGAATCTTAATATTTTTAATAA
193 CT-AAGAATGTCATGGTTCACTAAGAAAGT-AGGTTGCAATATGGAATCTTAATATTTTTAATAA
460467 TAAAATG
256 TAAAATG
* * * *
460474 TGTTACGCCTAAAAAATTATCAGAGTTTAAGTTGATGGAACCTTGGATTTTCCCACGATAAGAGA
1 GGTTACGCCTAAAAAATTATCAGAGTTTAAGCTGATAGAACCTTAGATTTTCCCACGAT-A-AGA
* *
460539 AAAGCTGAAAATGTT-ATGATGAAAATGTTATGAATATATATATAAGAAAT-ACG-ACAGCCTCT
64 AAA--T---AAT-TTAAAGATGAAAACGTTATGAA-A-ATATATAAGAAATGACGTACAGCC-C-
*
460601 ACTAATGTCATGGTTCACTAAGAAATAGATTATCATATGTAATGTTAATATTTTTATTAATAAAA
119 AATAATGTCATGGTTCACTAAGAAATAGATTATCATATGTAATGTTAATATTTTTATTAATAAAA
* * *
460666 TATGTTACTCCTAAGAATGTTATGGTTCACTAAGAAAGTATGTTGCAAT
184 TA-GTTACACCTAAGAATGTCATGGTTCACTAAGAAAGTAGGTTGCAAT
460715 CTGTAATTTA
Statistics
Matches: 404, Mismatches: 77, Indels: 40
0.78 0.15 0.08
Matches are distributed among these distances:
262 1 0.00
263 7 0.02
264 248 0.61
265 4 0.01
266 6 0.01
268 1 0.00
270 19 0.05
271 6 0.01
272 104 0.26
273 6 0.01
274 2 0.00
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (262 bp):
GGTTACGCCTAAAAAATTATCAGAGTTTAAGCTGATAGAACCTTAGATTTTCCCACGATAAGAAA
ATAATTTAAAGATGAAAACGTTATGAAAATATATAAGAAATGACGTACAGCCCAATAATGTCATG
GTTCACTAAGAAATAGATTATCATATGTAATGTTAATATTTTTATTAATAAAATAGTTACACCTA
AGAATGTCATGGTTCACTAAGAAAGTAGGTTGCAATATGGAATCTTAATATTTTTAATAATAAAA
TG
Found at i:464941 original size:95 final size:96
Alignment explanation
Indices: 464736--464977 Score: 255
Period size: 96 Copynumber: 2.5 Consensus size: 96
464726 ATTTAATTAA
* * * *
464736 TTTGTATTACTCTTTCAT-A-ATACATGGTTT-CGCCCTATAACTTAACCAATTAACATAACAAC
1 TTTGTATTACT-TTTCATAATATACATGGTTTAAG-CCTATAACTTAACC-ATCAACATAAAAAA
*
464798 AAGGCATAACCTATAATGTTATCCAGGAAACTAGG
63 AAGGCA-AACCTATAATGTTATCCAGGAAACCAGG
*
464833 TTTGTATTGCTTTTCATAATATACATGGTTTAAGCCTATAACTTAACCATCAACA-AAAATAAAA
1 TTTGTATTACTTTTCATAATATACATGGTTTAAGCCTATAACTTAACCATCAACATAAAA-AAAA
* *
464897 TGC-AACCTATAATGTTATCCTA-TAAACCAGG
65 GGCAAACCTATAATGTTATCC-AGGAAACCAGG
* * * *
464928 TTTGTTTTACTTTTTCATAATATAAACGTTTTCAA-CCTATAACTTAACCA
1 TTTGTATTAC-TTTTCATAATATACATGGTTT-AAGCCTATAACTTAACCA
464978 ATTAAATAAC
Statistics
Matches: 125, Mismatches: 13, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
95 32 0.26
96 43 0.34
97 24 0.19
98 25 0.20
99 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (96 bp):
TTTGTATTACTTTTCATAATATACATGGTTTAAGCCTATAACTTAACCATCAACATAAAAAAAAG
GCAAACCTATAATGTTATCCAGGAAACCAGG
Found at i:464997 original size:95 final size:94
Alignment explanation
Indices: 464736--464997 Score: 221
Period size: 95 Copynumber: 2.7 Consensus size: 94
464726 ATTTAATTAA
* * *
464736 TTTGTATTACTCTTTCAT-A-ATACATGGTTT-CGCCCTATAACTTAACCAATTAACATAACAAC
1 TTTGTATTACT-TTTCATAATATAAACGGTTTAAG-CCTATAACTTAACCAATTAA-AT---AAC
** *
464798 AAGGCATAACCTATAATGTTATCCAGGAAACTAGG
60 AAGGCGCAACCTATAATGTTATCCAGGAAACCAGG
* * * * * * **
464833 TTTGTATTGCTTTTCATAATATACATGGTTTAAGCCTATAACTTAACC-ATCAACAAAAATAAAA
1 TTTGTATTACTTTTCATAATATAAACGGTTTAAGCCTATAACTTAACCAAT-TA-AATAACAAGG
* *
464897 TGCAACCTATAATGTTATCCTA-TAAACCAGG
64 CGCAACCTATAATGTTATCC-AGGAAACCAGG
* *
464928 TTTGTTTTACTTTTTCATAATATAAACGTTTTCAA-CCTATAACTTAACCAATTAAATAACAAGG
1 TTTGTATTAC-TTTTCATAATATAAACGGTTT-AAGCCTATAACTTAACCAATTAAATAACAAGG
464992 CGCAAC
64 CGCAAC
464998 TGGTAACGTT
Statistics
Matches: 133, Mismatches: 23, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
95 47 0.35
96 40 0.30
97 17 0.13
98 27 0.20
99 2 0.02
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.34
Consensus pattern (94 bp):
TTTGTATTACTTTTCATAATATAAACGGTTTAAGCCTATAACTTAACCAATTAAATAACAAGGCG
CAACCTATAATGTTATCCAGGAAACCAGG
Found at i:468554 original size:16 final size:15
Alignment explanation
Indices: 468533--468603 Score: 70
Period size: 16 Copynumber: 4.5 Consensus size: 15
468523 GGTATTATCC
468533 GACCTGTTTTCAACCT
1 GACCTGTTTT-AACCT
* * *
468549 GACCTGTGATGAACAT
1 GACCTGT-TTTAACCT
468565 GACCTGTTGTTAACCT
1 GACCTGTT-TTAACCT
468581 GACCTGTTTTTAACCT
1 GACCTG-TTTTAACCT
*
468597 GATCTGT
1 GACCTGT
468604 AAATGATCCG
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
15 1 0.02
16 41 0.91
17 3 0.07
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.37
Consensus pattern (15 bp):
GACCTGTTTTAACCT
Found at i:468644 original size:16 final size:16
Alignment explanation
Indices: 468633--468675 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
468623 TGACCTGATC
468633 TGATATTTACCTGACT
1 TGATATTTACCTGACT
*
468649 TGATATTTACTTGACT
1 TGATATTTACCTGACT
468665 T-ATATATTACC
1 TGATAT-TTACC
468676 ATGGACGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 4 0.17
16 20 0.83
ACGTcount: A:0.28, C:0.16, G:0.09, T:0.47
Consensus pattern (16 bp):
TGATATTTACCTGACT
Found at i:468832 original size:14 final size:15
Alignment explanation
Indices: 468807--468835 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
468797 TAAATAGACC
468807 TATTATATAAAATTA
1 TATTATATAAAATTA
468822 TATTA-ATAAAATTA
1 TATTATATAAAATTA
468836 ATAAAATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTATATAAAATTA
Found at i:468841 original size:23 final size:25
Alignment explanation
Indices: 468808--468866 Score: 88
Period size: 23 Copynumber: 2.4 Consensus size: 25
468798 AAATAGACCT
468808 ATTATATAAAATTATATT-AATA-AA
1 ATTATATAAAATTAT-TTAAATATAA
468832 ATTA-ATAAAATTATTTAAATATAA
1 ATTATATAAAATTATTTAAATATAA
468856 ATTATATAAAA
1 ATTATATAAAA
468867 CATGATTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
22 2 0.06
23 14 0.44
24 10 0.31
25 6 0.19
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (25 bp):
ATTATATAAAATTATTTAAATATAA
Found at i:469323 original size:21 final size:21
Alignment explanation
Indices: 469297--469388 Score: 105
Period size: 21 Copynumber: 4.3 Consensus size: 21
469287 TAATTTACTT
469297 TATATAGTTTATATATATATATA
1 TATATAG-TT-TATATATATATA
469320 TATATAGTTTATATATATATA
1 TATATAGTTTATATATATATA
* *
469341 TATATAGGTTATATATA-CTA
1 TATATAGTTTATATATATATA
* * *
469361 TACATGGTTTATACATATATA
1 TATATAGTTTATATATATATA
469382 TTATATA
1 -TATATA
469389 AAATTATTTA
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
20 15 0.26
21 30 0.52
22 6 0.10
23 7 0.12
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.49
Consensus pattern (21 bp):
TATATAGTTTATATATATATA
Found at i:469357 original size:2 final size:2
Alignment explanation
Indices: 469306--469346 Score: 64
Period size: 2 Copynumber: 20.0 Consensus size: 2
469296 TTATATAGTT
*
469306 TA TA TA TA TA TA TA TA TA TA GTT 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
469347 GGTTATATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 35 0.97
3 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:469903 original size:23 final size:22
Alignment explanation
Indices: 469877--469947 Score: 61
Period size: 24 Copynumber: 3.0 Consensus size: 22
469867 TATACATGGT
469877 TTATAAATACAAATTATATAAAA
1 TTATAAATA-AAATTATATAAAA
* *
469900 TTATTTAATAAAATTAATAAAAAA
1 TTA-TAAATAAAATT-ATATAAAA
* *
469924 TATTTAAATGTAAATTATATAAAA
1 T-TATAAAT-AAAATTATATAAAA
469948 CATGATTAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
23 8 0.21
24 24 0.63
25 6 0.16
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (22 bp):
TTATAAATAAAATTATATAAAA
Found at i:469909 original size:24 final size:24
Alignment explanation
Indices: 469880--469947 Score: 77
Period size: 23 Copynumber: 2.8 Consensus size: 24
469870 ACATGGTTTA
*
469880 TAAATACAAATTATATAAAATTATT
1 TAAATA-AAATTATATAAAAATATT
469905 T-AATAAAATTA-ATAAAAAATATT
1 TAAATAAAATTATAT-AAAAATATT
*
469928 TAAATGTAAATTATATAAAA
1 TAAAT-AAAATTATATAAAA
469948 CATGATTAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
22 2 0.05
23 15 0.41
24 7 0.19
25 11 0.30
26 2 0.05
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (24 bp):
TAAATAAAATTATATAAAAATATT
Found at i:470242 original size:14 final size:14
Alignment explanation
Indices: 470220--470277 Score: 55
Period size: 14 Copynumber: 4.1 Consensus size: 14
470210 TCCATTTAAA
* *
470220 TTAGAGTTTGTGAT
1 TTAGGGTTTATGAT
470234 TTAGGGTTTAAT-AT
1 TTAGGGTTT-ATGAT
* *
470248 TTAGTGTTTATGGT
1 TTAGGGTTTATGAT
*
470262 TTAGGGTTTAGGAT
1 TTAGGGTTTATGAT
470276 TT
1 TT
470278 CTATAAACTA
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
13 2 0.06
14 32 0.91
15 1 0.03
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.52
Consensus pattern (14 bp):
TTAGGGTTTATGAT
Found at i:470432 original size:2 final size:2
Alignment explanation
Indices: 470361--470416 Score: 67
Period size: 2 Copynumber: 27.0 Consensus size: 2
470351 TTATATAGTT
* * *
470361 TA TA TA TA TA TG GA TA TA TA TA TA TA TA TA TA TA AA CTA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
470404 TA TA TA TA CTA TA
1 TA TA TA TA -TA TA
470417 CATGGTTTAT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
2 43 0.93
3 3 0.07
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.45
Consensus pattern (2 bp):
TA
Found at i:470451 original size:509 final size:492
Alignment explanation
Indices: 469341--470368 Score: 1449
Period size: 509 Copynumber: 2.0 Consensus size: 492
469331 TATATATATA
* * * * * *
469341 TATATAGGTTATATATACTATACATGGTTTATACATATATATTATATAAAATTATTTAATAAAAT
1 TATATAGTTTATATATACTATA-ATGGTATATAAATACAAATTATATAAAATTATATAATAAAAT
* *
469406 TAAT-AAAATTATTTAAATGTAAATTATATAAAACATGATTAATTAGGTGTTAAATAATTAGATT
65 TAATAAAAAATATTTAAATGGAAATTATATAAAACATGATTAATTAGGTGTTAAATAATTAGA-T
*
469470 ATCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATCAT
129 ATCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATAAT
469535 TAGTATTTTAGTTGCATCTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAATA
194 TAGTATTTTAGTTGCATCTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAATA
*
469600 AGTAATAATAAAACCCAAAAATAAGTCAATTTGCATTGGTGCTAGTCCATTTACATTAGTTTACA
259 AGTAATAATAAAACCCAAAAATAAATCAATTTGCA---GT-CTAG-----TTACA-TAG--T---
* * * *
469665 TAGGCCCAATACATAAGCCCACTCTTTTATTATAAATATATATGTATTAGTGCTAGTCCATTTAT
309 TAGGCCCAATACATAAGCCCACTCTTTTATTACAAATATATATGCATTACTGCTAGTCCATTTAA
* *
469730 ATTAGGGTTTGTGATTTAGGGTTTAATGTTTAGTGTTTAGGGTTTTTATAAACTATATAATTTAT
374 ATTAGAGTTTGTGATTTAGGGTTTAATATTTAGTGTTTAGGGTTTTTATAAACTATATAATTTAT
*
469795 TACTTTATATAGTTTATGCATAATATTTCTATAAACTATATATGTAATTTACTT
439 TACTTTATATAGTTTATGCATAATATTTCTATAAACTATATAAGTAATTTACTT
* *
469849 TATATAGTTTATATATACTATACATGGTTTATAAATACAAATTATATAAAATTATTTAATAAAAT
1 TATATAGTTTATATATACTATA-ATGGTATATAAATACAAATTATATAAAATTATATAATAAAAT
*
469914 TAATAAAAAATATTTAAATGTAAATTATATAAAACATGATTAATTAGGTGTTAAATAATTAG-TA
65 TAATAAAAAATATTTAAATGGAAATTATATAAAACATGATTAATTAGGTGTTAAATAATTAGATA
*
469978 TGCCACATTGCATATTATATGGTTCATAAATTGTAGTACATGTCATATTAATTTCATTTGCATAA
130 T--CACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATAA
*
470043 TTAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAAT
193 TTAGTATTTTAGTTGCATCTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAAT
* *
470108 AAGTAATAATAAAACCCAAAAATAAATCCATTTGCA-T-TAG-TGC-TAG-TAGGCCCAATACAT
258 AAGTAATAATAAAACCCAAAAATAAATCAATTTGCAGTCTAGTTACATAGTTAGGCCCAATACAT
470168 AAGCCCACTCTTTTATTACAAATATATATGCATTACTGCTAGTCCATTTAAATTAGAGTTTGTGA
323 AAGCCCACTCTTTTATTACAAATATATATGCATTACTGCTAGTCCATTTAAATTAGAGTTTGTGA
470233 TTTAGGGTTTAATATTTAGTGTTTATGGTTTAGGGTTTAGGATTTCTATAAACTATATAATTTAT
388 TTTAGGGTTTAATATTTA--G----T-GTTTAGGG--T----TTT-TATAAACTATATAATTTAT
* * * *
470298 TACTTTATATAGTTTTTGCATAATGTTTCTATAAGCTATATAAGTAATTTAGTT
439 TACTTTATATAGTTTATGCATAATATTTCTATAAACTATATAAGTAATTTACTT
470352 TATATAGTTTATATATA
1 TATATAGTTTATATATA
470369 TATGGATATA
Statistics
Matches: 481, Mismatches: 22, Indels: 39
0.89 0.04 0.07
Matches are distributed among these distances:
489 91 0.19
491 1 0.00
495 4 0.01
496 8 0.02
497 2 0.00
498 1 0.00
502 3 0.01
503 88 0.18
505 1 0.00
507 3 0.01
508 65 0.14
509 214 0.44
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.43
Consensus pattern (492 bp):
TATATAGTTTATATATACTATAATGGTATATAAATACAAATTATATAAAATTATATAATAAAATT
AATAAAAAATATTTAAATGGAAATTATATAAAACATGATTAATTAGGTGTTAAATAATTAGATAT
CACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATAATTA
GTATTTTAGTTGCATCTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAATAAG
TAATAATAAAACCCAAAAATAAATCAATTTGCAGTCTAGTTACATAGTTAGGCCCAATACATAAG
CCCACTCTTTTATTACAAATATATATGCATTACTGCTAGTCCATTTAAATTAGAGTTTGTGATTT
AGGGTTTAATATTTAGTGTTTAGGGTTTTTATAAACTATATAATTTATTACTTTATATAGTTTAT
GCATAATATTTCTATAAACTATATAAGTAATTTACTT
Found at i:470575 original size:24 final size:22
Alignment explanation
Indices: 470548--470591 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
470538 TATGATAATT
470548 AAATTAATAAATAGAATATTATAA
1 AAATTAATAAATA-AA-ATTATAA
*
470572 AAATTATTAAATAAAATTAT
1 AAATTAATAAATAAAATTAT
470592 TTTAATGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 2 0.11
24 12 0.63
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (22 bp):
AAATTAATAAATAAAATTATAA
Found at i:470819 original size:20 final size:20
Alignment explanation
Indices: 470794--470831 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
470784 ACAAAAAACT
*
470794 AAGTCCATTTGCATTAGTGC
1 AAGTCCATTTACATTAGTGC
470814 AAGTCCATTTACATTAGT
1 AAGTCCATTTACATTAGT
470832 TTACATAGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (20 bp):
AAGTCCATTTACATTAGTGC
Found at i:470940 original size:21 final size:21
Alignment explanation
Indices: 470903--470954 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
470893 TCCATTTATA
* **
470903 TTAGGGTTTGTGTTTTAGGGT
1 TTAGGGTTTATGTTTTAGGAC
*
470924 TTAGGGTTTATAG-TTTATGAC
1 TTAGGGTTTAT-GTTTTAGGAC
470945 TTAGGGTTTA
1 TTAGGGTTTA
470955 GGGTTTCTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 25 0.96
22 1 0.04
ACGTcount: A:0.17, C:0.02, G:0.31, T:0.50
Consensus pattern (21 bp):
TTAGGGTTTATGTTTTAGGAC
Found at i:471048 original size:2 final size:2
Alignment explanation
Indices: 471043--471086 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
471033 TTATATAGTT
471043 TA TA TA TA -A TA TA 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
471084 TA T
1 TA T
471087 TAGTATGCCA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:471052 original size:48 final size:48
Alignment explanation
Indices: 470957--471052 Score: 131
Period size: 48 Copynumber: 2.0 Consensus size: 48
470947 AGGGTTTAGG
* * *
470957 GTTTCTATAAACTAAATAATTTATTACTTTATATAGTTTATGCATAAT
1 GTTTCTATAAACTAAATAAGTAATTACTTTATATAGTTTATACATAAT
* *
471005 GTTTCTATAAACTATATAAGTAATTTAC-TTATATAGTTTATATATAAT
1 GTTTCTATAAACTAAATAAGTAA-TTACTTTATATAGTTTATACATAAT
471053 ATATATATAT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
48 38 0.90
49 4 0.10
ACGTcount: A:0.39, C:0.07, G:0.06, T:0.48
Consensus pattern (48 bp):
GTTTCTATAAACTAAATAAGTAATTACTTTATATAGTTTATACATAAT
Found at i:472351 original size:15 final size:15
Alignment explanation
Indices: 472331--472362 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
472321 CCCCCTTACT
472331 TTAACACTACTCCTC
1 TTAACACTACTCCTC
472346 TTAACACTACTCCTC
1 TTAACACTACTCCTC
472361 TT
1 TT
472363 TAAAACGCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.38, G:0.00, T:0.38
Consensus pattern (15 bp):
TTAACACTACTCCTC
Found at i:473741 original size:13 final size:13
Alignment explanation
Indices: 473722--473758 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
473712 GTCATAACCC
473722 GACCCGACCCGTT
1 GACCCGACCCGTT
*
473735 TACCCGACCCGTT
1 GACCCGACCCGTT
473748 GACCCGACCCG
1 GACCCGACCCG
473759 ACCTATTGAC
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:0.16, C:0.49, G:0.22, T:0.14
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:473756 original size:31 final size:31
Alignment explanation
Indices: 473718--473784 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
473708 GCCGGTCATA
* * *
473718 ACCCGACCCGACCCGTTTACCCGACCCGTTG
1 ACCCGACCCGACCCATTGACCCAACCCGTTG
*
473749 ACCCGACCCGACCTATTGACCCAACCCGTTG
1 ACCCGACCCGACCCATTGACCCAACCCGTTG
473780 ACCCG
1 ACCCG
473785 TTGACCGTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.19, C:0.48, G:0.18, T:0.15
Consensus pattern (31 bp):
ACCCGACCCGACCCATTGACCCAACCCGTTG
Found at i:473757 original size:18 final size:18
Alignment explanation
Indices: 473736--473790 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
473726 CGACCCGTTT
*
473736 ACCCGACCCGTTGACCCG
1 ACCCGACCCGTTGACCCA
**
473754 ACCCGACCTATTGACCCA
1 ACCCGACCCGTTGACCCA
473772 ACCCGTTGACCCGTTGACC
1 ACCC---GACCCGTTGACC
473791 GTTGACCACT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
18 19 0.66
21 10 0.34
ACGTcount: A:0.20, C:0.45, G:0.18, T:0.16
Consensus pattern (18 bp):
ACCCGACCCGTTGACCCA
Found at i:473794 original size:15 final size:17
Alignment explanation
Indices: 473774--473807 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
473764 TTGACCCAAC
473774 CCGTTGACC-C-GTTGA
1 CCGTTGACCACTGTTGA
473789 CCGTTGACCACTGTTGA
1 CCGTTGACCACTGTTGA
473806 CC
1 CC
473808 AAAACTTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
16 1 0.06
17 7 0.41
ACGTcount: A:0.15, C:0.35, G:0.24, T:0.26
Consensus pattern (17 bp):
CCGTTGACCACTGTTGA
Found at i:476706 original size:42 final size:42
Alignment explanation
Indices: 476592--477234 Score: 901
Period size: 42 Copynumber: 15.1 Consensus size: 42
476582 TTAATTACCA
* * * *
476592 TTACAGTTCCCCCAGATCCCTTTGCTGCGTGCAAGGGTAAGCC
1 TTACAGTT-TCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCC
* * *
476635 TTACAGTTCCCCCAGGTTCCTTTGTTGTGTGCAAAGGTAAGCC
1 TTACAGTT-TCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCC
* *
476678 TTACAGTTTCCCAGGTCCCTTTCCTGTGTGCAAGGGTAAGCC
1 TTACAGTTTCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCC
* *
476720 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
1 TTACAGTT-TCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCC
* * * *
476763 TTACAGTTCCCCCAGGTCCCTTTACTGTGTGCAAGGGTAAGCT
1 TTACAGTT-TCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCC
* * * *
476806 TTACAGTTCCCCCAGG-TCCCTTGCTGTGTGCAAGCGTAGGCC
1 TTACAGTT-TCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCC
476848 TTACAGTTTCCCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCC
1 TTACAGTTT--CCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCC
* * *
476892 TTACAGTTTCCCAGGTTCCTTTACTATGTGCAAGGGTGAGCC
1 TTACAGTTTCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCC
476934 TTACAGTTTCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCC
1 TTACAGTTTCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCC
*
476976 TTACAGTTTCCCAGGTTCCTTTGCTGTGTGCAAGGGTCAGCC
1 TTACAGTTTCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCC
*
477018 TTACAGTTTCCCCCAGGTTCCTTTACTGTGTGCAAGGGTAAGCC
1 TTACAGTTT--CCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCC
*
477062 TTACAGTTTCCCAGGTTCCTTTGCTGTGTGTAAGGGTAAGCC
1 TTACAGTTTCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCC
477104 TTACAGTTTCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCC
1 TTACAGTTTCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCC
* *
477146 TTACAGTTTCCCATGTTCCTTTGCTGTGTGCAAGGGTCAGCC
1 TTACAGTTTCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCC
* * * *
477188 TTACAGTTTCCCCAGGCTCTTTTGCTATGTGCAAGGATAAGACC
1 TTACAGTTT-CCCAGGTTCCTTTGCTGTGTGCAAGGGTAAG-CC
477232 TTA
1 TTA
477235 TCATTTTTGC
Statistics
Matches: 548, Mismatches: 44, Indels: 15
0.90 0.07 0.02
Matches are distributed among these distances:
42 305 0.56
43 166 0.30
44 77 0.14
ACGTcount: A:0.17, C:0.27, G:0.24, T:0.32
Consensus pattern (42 bp):
TTACAGTTTCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCC
Found at i:476833 original size:128 final size:128
Alignment explanation
Indices: 476592--477234 Score: 936
Period size: 128 Copynumber: 5.0 Consensus size: 128
476582 TTAATTACCA
* * *
476592 TTACAGTTCCCCCAGATCCCTTTGCTGCGTGCAAGGGTAAGCCTTACAGTTCCCCCAGGTTCCTT
1 TTACAGTTCCCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTCCCCCAGGTTCCTT
** * * *
476657 TGTTGTGTGCAAAGGTAAGCCTTACAGTTTCCCAGGTCCCTTTCCTGTGTGCAAGGGTAAGCC
66 TACTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCC
* *
476720 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTCCCCCAGGTCCCTT
1 TTACAGTTCCCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTCCCCCAGGTTCCTT
* * * * *
476785 TACTGTGTGCAAGGGTAAGCTTTACAGTTCCCCCAGG-TCCCTTGCTGTGTGCAAGCGTAGGCC
66 TACTGTGTGCAAGGGTAAGCCTTACAGTT-TCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCC
*
476848 TTACAGTTTCCCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTT-TCCCAGGTTCCT
1 TTACAG-TTCCCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTCCCCCAGGTTCCT
* *
476912 TTACTATGTGCAAGGGTGAGCCTTACAGTTTCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCC
65 TTACTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCC
* *
476976 TTACAGTT-TCCCAGGTTCCTTTGCTGTGTGCAAGGGTCAGCCTTACAGTTTCCCCCAGGTTCCT
1 TTACAGTTCCCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAG-TTCCCCCAGGTTCCT
*
477040 TTACTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTTCCTTTGCTGTGTGTAAGGGTAAGCC
65 TTACTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCC
* * *
477104 TTACAGTT-TCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTT-TCCCATGTTCCTT
1 TTACAGTTCCCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTCCCCCAGGTTCCTT
* * * * * *
477167 TGCTGTGTGCAAGGGTCAGCCTTACAGTTTCCCCAGGCTCTTTTGCTATGTGCAAGGATAAGACC
66 TACTGTGTGCAAGGGTAAGCCTTACAGTTT-CCCAGGTTCCTTTGCTGTGTGCAAGGGTAAG-CC
477232 TTA
1 TTA
477235 TCATTTTTGC
Statistics
Matches: 469, Mismatches: 39, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
126 77 0.16
127 38 0.08
128 304 0.65
129 50 0.11
ACGTcount: A:0.17, C:0.27, G:0.24, T:0.32
Consensus pattern (128 bp):
TTACAGTTCCCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTCCCCCAGGTTCCTT
TACTGTGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCC
Done.