Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007889.1 Hibiscus syriacus cultivar Beakdansim tig00110271_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: 1663484
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 9
Found at i:3007 original size:15 final size:17
Alignment explanation
Indices: 2953--3009 Score: 87
Period size: 17 Copynumber: 3.3 Consensus size: 17
2943 ACGACTAATA
2953 ATATAATGTTTCAACTTT
1 ATAT-ATGTTTCAACTTT
* *
2971 ATATATTTTTTAACTTT
1 ATATATGTTTCAACTTT
2988 ATATATGTTTCAACTTT
1 ATATATGTTTCAACTTT
3005 ATATA
1 ATATA
3010 ATGACAACGA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
17 31 0.89
18 4 0.11
ACGTcount: A:0.33, C:0.09, G:0.04, T:0.54
Consensus pattern (17 bp):
ATATATGTTTCAACTTT
Found at i:10650 original size:23 final size:22
Alignment explanation
Indices: 10597--10662 Score: 75
Period size: 22 Copynumber: 3.0 Consensus size: 22
10587 GGGTCCTTGT
10597 TTTTATGTGTATTTTA-TTTTTA
1 TTTTATGT-TATTTTATTTTTTA
10619 TTTTATGTT-TTTACTATTTTTTA
1 TTTTATGTTATTT--TATTTTTTA
10642 TTATT-TGTTATTTTATTTTTT
1 TT-TTATGTTATTTTATTTTTT
10663 TTAAATTAGG
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
20 3 0.08
21 1 0.03
22 18 0.46
23 12 0.31
24 5 0.13
ACGTcount: A:0.17, C:0.02, G:0.06, T:0.76
Consensus pattern (22 bp):
TTTTATGTTATTTTATTTTTTA
Found at i:15848 original size:2 final size:2
Alignment explanation
Indices: 15841--15887 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
15831 ATCTAATCTG
15841 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15883 AT AT A
1 AT AT A
15888 ACTTGACACT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:18134 original size:23 final size:23
Alignment explanation
Indices: 18107--18153 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
18097 ATCTAATTTG
*
18107 TTAACTATCAATGGTTGTTAACA
1 TTAACTATCAACGGTTGTTAACA
*
18130 TTAACTATTAACGGTTGTTAACA
1 TTAACTATCAACGGTTGTTAACA
18153 T
1 T
18154 GTGGTGATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (23 bp):
TTAACTATCAACGGTTGTTAACA
Found at i:19635 original size:39 final size:37
Alignment explanation
Indices: 19592--19701 Score: 105
Period size: 39 Copynumber: 2.9 Consensus size: 37
19582 ATAATTTCCA
* *
19592 GAAAACGGTTTTCGAAAATGTATATATTATATAGTTTTT
1 GAAAACGGTTTT-GAAAATATATATATTATATA-ATTTT
** *
19631 GAAAA-TATTTTGAAAATATATATAATATATAATTTT
1 GAAAACGGTTTTGAAAATATATATATTATATAATTTT
* *
19667 AAAAACGGTTTCTTGGAAATATATATATATATATA
1 GAAAACGG-TT-TTGAAAATATATATAT-TATATA
19702 TATATTATAT
Statistics
Matches: 57, Mismatches: 10, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
36 8 0.14
37 18 0.32
38 6 0.11
39 19 0.33
40 6 0.11
ACGTcount: A:0.44, C:0.04, G:0.11, T:0.42
Consensus pattern (37 bp):
GAAAACGGTTTTGAAAATATATATATTATATAATTTT
Found at i:19783 original size:27 final size:28
Alignment explanation
Indices: 19725--19783 Score: 95
Period size: 27 Copynumber: 2.1 Consensus size: 28
19715 TTTTTAAACA
19725 TTTTGAAAATAAGTATATAATATATAAT
1 TTTTGAAAATAAGTATATAATATATAAT
19753 TTTTGAAAA-ACA-TATATAATATATAAT
1 TTTTGAAAATA-AGTATATAATATATAAT
19780 TTTT
1 TTTT
19784 AAAGCATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
27 20 0.67
28 10 0.33
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.46
Consensus pattern (28 bp):
TTTTGAAAATAAGTATATAATATATAAT
Found at i:19818 original size:66 final size:65
Alignment explanation
Indices: 19699--19828 Score: 176
Period size: 66 Copynumber: 2.0 Consensus size: 65
19689 ATATATATAT
* *
19699 ATATATATTATATACTTTTTTAAACATTTTGAAAATAAGTATATAATATATAATTTTTGAAAAAC
1 ATATATAATATATACATTTTTAAACATTTTGAAAATAAGTATATAATATATAATTTTTGAAAAAC
*
19764 ATATATAATATATA-ATTTTTAAAGCATTTTTGAAAACCT-A-TATATAATATATAATTTTTTAA
1 ATATATAATATATACATTTTTAAA-CA-TTTTGAAAA--TAAGTATATAATATATAATTTTTGAA
19826 AAA
62 AAA
19829 AACATTTTTA
Statistics
Matches: 58, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
64 8 0.14
65 15 0.26
66 33 0.57
67 1 0.02
68 1 0.02
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.45
Consensus pattern (65 bp):
ATATATAATATATACATTTTTAAACATTTTGAAAATAAGTATATAATATATAATTTTTGAAAAAC
Found at i:19855 original size:33 final size:33
Alignment explanation
Indices: 19811--19915 Score: 140
Period size: 33 Copynumber: 3.2 Consensus size: 33
19801 CTATATATAA
*
19811 TATATAATTTTTTAAAAAAACATTTTTAAAAAT
1 TATATAGTTTTTTAAAAAAACATTTTTAAAAAT
* * * *
19844 TATATAGTTTTTTTAAAAAATAATTTTGAAAAT
1 TATATAGTTTTTTAAAAAAACATTTTTAAAAAT
*
19877 TATATAG-TTTTTAAAAAAACATTTTTGAAAATT
1 TATATAGTTTTTTAAAAAAACATTTTT-AAAAAT
19910 TATATA
1 TATATA
19916 TAGTATATAG
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
32 16 0.26
33 45 0.74
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.47
Consensus pattern (33 bp):
TATATAGTTTTTTAAAAAAACATTTTTAAAAAT
Found at i:20006 original size:18 final size:18
Alignment explanation
Indices: 19983--20020 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
19973 TTTATGTTTA
19983 TTTATTA-TTAATATTATT
1 TTTATTACTT-ATATTATT
*
20001 TTTATTACTTATTTTATT
1 TTTATTACTTATATTATT
20019 TT
1 TT
20021 CCCGTTTCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 16 0.89
19 2 0.11
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTATTACTTATATTATT
Found at i:21329 original size:25 final size:24
Alignment explanation
Indices: 21271--21357 Score: 61
Period size: 25 Copynumber: 3.3 Consensus size: 24
21261 ATCCTTTAAA
* *
21271 TATTTTATTTCTTTTATTTTTATTT
1 TATTTT-TCTCTTTGATTTTTATTT
21296 TATTGTTTCTCTTTGATTTTT-TTGT
1 TATT-TTTCTCTTTGATTTTTATT-T
21321 GTATTTTTCTCACTTTTGATTTATTGA-TT
1 -TATTTTTCT--C-TTTGATTT-TT-ATTT
21350 TATTTTTC
1 TATTTTTC
21358 ATTTTTTGTA
Statistics
Matches: 51, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
24 2 0.04
25 22 0.43
26 6 0.12
27 1 0.02
28 16 0.31
29 3 0.06
30 1 0.02
ACGTcount: A:0.14, C:0.08, G:0.07, T:0.71
Consensus pattern (24 bp):
TATTTTTCTCTTTGATTTTTATTT
Found at i:25738 original size:84 final size:84
Alignment explanation
Indices: 25455--26607 Score: 1192
Period size: 84 Copynumber: 13.9 Consensus size: 84
25445 TAAAAGACAA
* * * *
25455 CATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAAC-AAAGACCTTCGAGTTCAACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTAC
* *
25519 GCTCAGCTCAAAGGCATAT
66 GCTCAGCTCCAAGGCACAT
* * * * * *
25538 CATTTGCTGCATATCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGAGCTTC-AGGTTCGATTA
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGA-GTTCGACTA
* * *
25602 CACTCAGCTTCGAAGGCATAT
65 CGCTCAGC-TCCAAGGCACAT
* *
25623 CATTTGTAGCATAACTTAAGTCGAGAAGGGTTATATGCCAACAAAAGACCTTCGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTAC
25688 GCTCAGCTCCAAGGCACAT
66 GCTCAGCTCCAAGGCACAT
* * * * * * * *
25707 CATTTGTAACATAGCTCAAGGCAAGAAGGGTTATTTGCCAACAAAAGACCTTCAAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTAC
* * *
25772 GCTCAGTTCTAAGGCATAT
66 GCTCAGCTCCAAGGCACAT
* *
25791 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCAAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTAC
*
25856 GATCAGCTCCAAGGCACAT
66 GCTCAGCTCCAAGGCACAT
* * * *
25875 CATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTG-C--C-AAAGACCCTCGAATTCGATTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTAC
* * * **
25936 ACTCAGCTTCGAGGGCATGT
66 GCTCAGC-TCCAAGGCACAT
* * * * * * * *
25956 CATTTACAGCATAAATCAAGGCTAGAAGGGCTATCTGCC-A-AAGA-ACC-TCGAGTTCGATTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTAC
* * *
26017 ACTCAGCTTCGATGGCACAT
66 GCTCAGC-TCCAAGGCACAT
*
26037 CATTT-CAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTAC
26101 GCTCAGCTCCAAGGCACAT
66 GCTCAGCTCCAAGGCACAT
* * * * *
26120 CATCTGCAACATAACTTAAGTCGAGAAGAGTTATCTGCCAACCAAATACCTTCGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTAC
26185 GCTCAGCTCCAAGGCACAT
66 GCTCAGCTCCAAGGCACAT
* ** * * * *
26204 CATTTGCAGCATAGCTTAAGTTAAAAAGGGTTATCTG-C--C-AAATACCCTCGAGTTCGATTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTAC
* * *
26265 ACTCAGCTTCGAGGGCACAT
66 GCTCAGC-TCCAAGGCACAT
** * * * * *
26285 CATTTATAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTAC
* *
26350 GCTCAGCTCTAAGGCATAT
66 GCTCAGCTCCAAGGCACAT
* * *
26369 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-C--C-AAAGACCTTCGAGTTCGATTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTAC
* * *
26430 ACTCAGCTTCGAAGGCATAT
66 GCTCAGC-TCCAAGGCACAT
* * * * * * **
26450 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGATATTCGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTAC
* *
26515 GCTCAACTCCAAGGCACAC
66 GCTCAGCTCCAAGGCACAT
* * * * * * ** * *
26534 CATTTGTAACATAGCTTAAGTCGAGAAGGGCTATCTGTCAGCCGAAGACCTTTGAGTTCAACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTAC
*
26599 ACTCAGCTC
66 GCTCAGCTC
26608 AGAGGCAAAC
Statistics
Matches: 899, Mismatches: 148, Indels: 45
0.82 0.14 0.04
Matches are distributed among these distances:
80 104 0.12
81 160 0.18
82 8 0.01
83 59 0.07
84 446 0.50
85 121 0.13
86 1 0.00
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.25
Consensus pattern (84 bp):
CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTAC
GCTCAGCTCCAAGGCACAT
Found at i:26098 original size:329 final size:330
Alignment explanation
Indices: 25455--26570 Score: 1424
Period size: 329 Copynumber: 3.4 Consensus size: 330
25445 TAAAAGACAA
* *
25455 CATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAA-CAAAGACCTTCGAGTTCAACTAC
1 CATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
* * * *
25519 GCTCAGCTCAAAGGCATATCATTTGCTGCATATCTTAAGTCGAGAAGGGCTATCTGCCAACCAAA
66 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAA
* * * * * * *
25584 GAGCTTC-AGGTTCGATTACACTCAGCTTCGAAGGCATATCATTTGTAGCATAACTTAAGTCGAG
127 GACCCTCGA-GTTCGATTACACTCAGCTTCGAGGGCATATCATTTATAGCATAACTCAAGGCTAG
*
25648 AAGGGTTATATGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTG
191 AAGGGTTATCTG-C--CAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTG
* * * * * * * *
25713 TAACATAGCTCAAGGCAAGAAGGGTTATTTGCCAACAAAAGACCTTCAAGTTCGACTACGCTCAG
253 CAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAG
*
25778 TTCTAAGGCATAT
318 TTCCAAGGCATAT
* * *
25791 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCAAGTTCGACTAC
1 CATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
* *
25856 GATCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACC
66 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACC
* * * *
25921 CTCGAATTCGATTACACTCAGCTTCGAGGGCATGTCATTTACAGCATAAATCAAGGCTAGAAGGG
131 CTCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTATAGCATAACTCAAGGCTAGAAGGG
* * * * *
25986 CTATCTGCC-AAAGAACC-TCGAGTTCGATTACACTCAGCTTCGATGGCACATCATTT-CAGCAT
196 TTATCTGCCAAAAG-ACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCAT
* *
26048 AACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA
259 AGCTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGTTCCAA
*
26113 GGCACAT
324 GGCATAT
* * * * * *
26120 CATCTGCAACATAACTTAAGTCGAGAAGAGTTATCTGCCAACCAAATACCTTCGAGTTCGACTAC
1 CATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
** * * *
26185 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTTAAAAAGGGTTATCTGCCAAATACC
66 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACC
*
26250 CTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTATAGCATAACTCAAGGCTAGAAGGG
131 CTCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTATAGCATAACTCAAGGCTAGAAGGG
* *
26315 TTATCTGTCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCATATCATTTGCAGCA
196 TTATCTG---CCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCA
* * * *
26380 TAGCTTAAGTCGAGAAGGGCTATCTG----CCAAAGACCTTCGAGTTCGATTACACTCAGCTTCG
258 TAGCTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAG-TTCC
26441 AAGGCATAT
322 AAGGCATAT
* * * **
26450 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC-ACCAAAAGATATTCGAGTTCGACTA
1 CATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACC-AAAGACCTTCGAGTTCGACTA
* * * *
26514 CGCTCAACTCCAAGGCACACCATTTGTAACATAGCTTAAGTCGAGAAGGGCTATCTG
65 CGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG
26571 TCAGCCGAAG
Statistics
Matches: 680, Mismatches: 88, Indels: 30
0.85 0.11 0.04
Matches are distributed among these distances:
329 304 0.45
330 127 0.19
332 20 0.03
333 118 0.17
334 1 0.00
336 38 0.06
337 72 0.11
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.25
Consensus pattern (330 bp):
CATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACC
CTCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTATAGCATAACTCAAGGCTAGAAGGG
TTATCTGCCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAG
CTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGTTCCAAGG
CATAT
Found at i:26338 original size:165 final size:165
Alignment explanation
Indices: 25455--26649 Score: 1327
Period size: 165 Copynumber: 7.2 Consensus size: 165
25445 TAAAAGACAA
* * *
25455 CATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCAACTACG
1 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACG
* * * *
25520 CTCAGCTCAAAGGCATATCATTTGCTGCATATCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAG
66 CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-C--CCAAAG
*
25585 AGCTTC-AGGTTCGATTACACTCAGCTTCGAAGGCATAT
128 ACCTTCGA-GTTCGATTACACTCAGCTTCGAAGGCATAT
** * * * * *
25623 CATTTGTAGCATAACTTAAGTCGAGAAGGGTTATATGCCAACAAAAGACCTTCGAGTTCGACTAC
1 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCC-ACCAAAGACCTTCGAGTTCGACTAC
* * * * * * *
25688 GCTCAGCTCCAAGGCACATCATTTGTAACATAGCTCAAGGCAAGAAGGGTTATTTGCCAACAAAA
65 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCC--C-AAA
* * * *
25753 GACCTTCAAGTTCGACTACGCTCAG-TTCTAAGGCATAT
127 GACCTTCGAGTTCGATTACACTCAGCTTCGAAGGCATAT
* * * * *
25791 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCAAGTTCGACTAC
1 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCC-ACCAAAGACCTTCGAGTTCGACTAC
* *
25856 GATCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTG-CCAAAGAC
65 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCCAAAGAC
* * * *
25920 CCTCGAATTCGATTACACTCAGCTTCGAGGGCATGT
130 CTTCGAGTTCGATTACACTCAGCTTCGAAGGCATAT
* * *
25956 CATTTACAGCATAAATCAAGGCTAGAAGGGCTATCTG---CCAAAGAACC-TCGAGTTCGATTAC
1 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACCAAAG-ACCTTCGAGTTCGACTAC
* * * * *
26017 ACTCAGCTTCGATGGCACATCATTT-CAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAA
65 GCTCAGC-TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-C--CCAA
* * * *
26081 AGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACAT
126 AGACCTTCGAGTTCGATTACACTCAGCTTCGAAGGCATAT
* * * * * * * *
26120 CATCTGCAACATAACTTAAGTCGAGAAGAGTTATCTGCCAACCAAATACCTTCGAGTTCGACTAC
1 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCC-ACCAAAGACCTTCGAGTTCGACTAC
** * * *
26185 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTTAAAAAGGGTTATCTG-CCAAATAC
65 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCCAAAGAC
* * *
26249 CCTCGAGTTCGATTACACTCAGCTTCGAGGGCACAT
130 CTTCGAGTTCGATTACACTCAGCTTCGAAGGCATAT
* *
26285 CATTTATAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTAC
1 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACC-AAAGACCTTCGAGTTCGACTAC
* *
26350 GCTCAGCTCTAAGGCATATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-CCAAAGAC
65 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCCAAAGAC
26414 CTTCGAGTTCGATTACACTCAGCTTCGAAGGCATAT
130 CTTCGAGTTCGATTACACTCAGCTTCGAAGGCATAT
* **
26450 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGATATTCGAGTTCGACTAC
1 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACC-AAAGACCTTCGAGTTCGACTAC
* * * * *
26515 GCTCAACTCCAAGGCACACCATTTGTAACATAGCTTAAGTCGAGAAGGGCTATCTGTCAGCCGAA
65 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-C--CCAAA
* * * * *
26580 GACCTTTGAGTTCAACTACACTCAGC-TC-AGAGGCAAAC
127 GACCTTCGAGTTCGATTACACTCAGCTTCGA-AGGCATAT
* **
26618 CAAATTTACAGCATAGCTCAAGGAGAGAAGGG
1 C--ATTTACAGCATAACTCAAGGCTAGAAGGG
26650 ATATTTGTCA
Statistics
Matches: 873, Mismatches: 127, Indels: 52
0.83 0.12 0.05
Matches are distributed among these distances:
161 53 0.06
162 18 0.02
164 89 0.10
165 332 0.38
166 1 0.00
167 20 0.02
168 216 0.25
169 117 0.13
170 27 0.03
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (165 bp):
CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACG
CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCCAAAGACC
TTCGAGTTCGATTACACTCAGCTTCGAAGGCATAT
Found at i:27329 original size:39 final size:42
Alignment explanation
Indices: 27286--27381 Score: 119
Period size: 43 Copynumber: 2.3 Consensus size: 42
27276 TTCGAAAATG
*
27286 TATATAT-TATATAGTTTTTGAAAAC-ATTT-TT-AATATATA
1 TATATATATATATA-ATTTTGAAAACGATTTCTTGAATATATA
* *
27325 TATATATATAATATAATTTTGAAAACGGTTTCTTGGATATATA
1 TATATATAT-ATATAATTTTGAAAACGATTTCTTGAATATATA
27368 TATATATATATATA
1 TATATATATATATA
27382 TATATATATA
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
39 7 0.14
40 11 0.22
41 8 0.16
42 7 0.14
43 16 0.33
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.48
Consensus pattern (42 bp):
TATATATATATATAATTTTGAAAACGATTTCTTGAATATATA
Found at i:27368 original size:2 final size:2
Alignment explanation
Indices: 27361--27393 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
27351 GGTTTCTTGG
27361 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
27394 ATTTTTAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27510 original size:39 final size:37
Alignment explanation
Indices: 27378--27514 Score: 179
Period size: 38 Copynumber: 3.6 Consensus size: 37
27368 TATATATATA
27378 TATATATATATATATAATTTTTAAAACATTTTGAAAA-
1 TATATATA-ATATATAATTTTTAAAACATTTTGAAAAC
*
27415 TAAGTATATAATTTATAATTTTTGAAAAACATTTTGAAAAC
1 T-A-TATATAATATATAATTTTT--AAAACATTTTGAAAAC
*
27456 -ATATATAATATATAATTTTTAAAGCATTTTTGAAAACC
1 TATATATAATATATAATTTTTAAAACA-TTTTGAAAA-C
27494 TATATATAATATATAATTTTT
1 TATATATAATATATAATTTTT
27515 TTAAAAAACA
Statistics
Matches: 89, Mismatches: 3, Indels: 14
0.84 0.03 0.13
Matches are distributed among these distances:
36 5 0.06
37 10 0.11
38 32 0.36
39 27 0.30
40 15 0.17
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.45
Consensus pattern (37 bp):
TATATATAATATATAATTTTTAAAACATTTTGAAAAC
Found at i:27540 original size:79 final size:77
Alignment explanation
Indices: 27379--27541 Score: 210
Period size: 77 Copynumber: 2.1 Consensus size: 77
27369 ATATATATAT
* *
27379 ATATATATATATATAATTTTTAAAACATTTTGAAAATAAGTATATAATTTATAATTTTTGAAAAA
1 ATATATATATATATAATTTTTAAAACATTTTGAAAATAAGTATATAATATATAATTTTTAAAAAA
27444 CATTTTGAAAAC
66 CATTTTGAAAAC
*
27456 ATATATA-ATATATAATTTTTAAAGCATTTTTGAAAACCT-A-TATATAATATATAATTTTTTTA
1 ATATATATATATATAATTTTTAAAACA-TTTTGAAAA--TAAGTATATAATATATAA--TTTTTA
*
27518 AAAAACATTTTTAAAA-
61 AAAAACATTTTGAAAAC
27534 AT-TATATA
1 ATATATATA
27542 GATTTTAAAA
Statistics
Matches: 76, Mismatches: 4, Indels: 11
0.84 0.04 0.12
Matches are distributed among these distances:
76 18 0.24
77 33 0.43
78 4 0.05
79 21 0.28
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (77 bp):
ATATATATATATATAATTTTTAAAACATTTTGAAAATAAGTATATAATATATAATTTTTAAAAAA
CATTTTGAAAAC
Found at i:27548 original size:31 final size:32
Alignment explanation
Indices: 27513--27607 Score: 113
Period size: 32 Copynumber: 2.9 Consensus size: 32
27503 TATATAATTT
27513 TTTTAAAAAACATTTTTAAAAATTATATAG-A
1 TTTTAAAAAACATTTTTAAAAATTATATAGTA
* *
27544 TTTTAAAAAAACATTTTT-GAAATTATATAGTTT
1 TTTT-AAAAAACATTTTTAAAAATTATATAG-TA
*
27577 TTTTAAAAAAGCATTTTTGAAAATTTATATA
1 TTTTAAAAAA-CATTTTT-AAAAATTATATA
27608 TAGTATATAG
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
31 15 0.28
32 19 0.35
33 11 0.20
35 9 0.17
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.45
Consensus pattern (32 bp):
TTTTAAAAAACATTTTTAAAAATTATATAGTA
Found at i:27554 original size:33 final size:33
Alignment explanation
Indices: 27503--27607 Score: 115
Period size: 33 Copynumber: 3.2 Consensus size: 33
27493 CTATATATAA
* * *
27503 TATATAATTTTTTTAAAAAACATTTTTAAAAAT
1 TATATAGTATTTTAAAAAAACATTTTTAAAAAT
*
27536 TATATAG-ATTTTAAAAAAACATTTTT-GAAAT
1 TATATAGTATTTTAAAAAAACATTTTTAAAAAT
* * *
27567 TATATAGTTTTTTTAAAAAAGCATTTTTGAAAATT
1 TATATAG-TATTTTAAAAAAACATTTTT-AAAAAT
27602 TATATA
1 TATATA
27608 TAGTATATAG
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
31 11 0.18
32 17 0.28
33 23 0.38
35 9 0.15
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.47
Consensus pattern (33 bp):
TATATAGTATTTTAAAAAAACATTTTTAAAAAT
Found at i:27645 original size:45 final size:44
Alignment explanation
Indices: 27567--27651 Score: 109
Period size: 45 Copynumber: 1.9 Consensus size: 44
27557 TTTTTGAAAT
* ** *
27567 TATATAGTTTTTTTAAAAAAGCATTTTTGAAAATTTATATATAG
1 TATATAGTTTTTTTAAAAAAGCAATTTAAAAAATGTATATATAG
27611 TATATAGTTTTTTTTAAAGAAA-CAATTTAAAAAATGTATAT
1 TATATAG-TTTTTTTAAA-AAAGCAATTTAAAAAATGTATAT
27652 TATATAGTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
44 7 0.20
45 25 0.71
46 3 0.09
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.46
Consensus pattern (44 bp):
TATATAGTTTTTTTAAAAAAGCAATTTAAAAAATGTATATATAG
Found at i:29047 original size:12 final size:13
Alignment explanation
Indices: 29030--29058 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
29020 CGAATCGGAT
29030 ATTTAAATT-TTA
1 ATTTAAATTCTTA
29042 ATTTAAATTCTTA
1 ATTTAAATTCTTA
29055 ATTT
1 ATTT
29059 TCACAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (13 bp):
ATTTAAATTCTTA
Found at i:30553 original size:40 final size:42
Alignment explanation
Indices: 30500--30597 Score: 148
Period size: 41 Copynumber: 2.4 Consensus size: 42
30490 TTCGGTTTTC
*
30500 AAAAAACCGGTTTTTTAAAAAAAACCTGTTTTTT-TC-GGAT
1 AAAAAACCGGTTTTTTAAAAAAAACCGGTTTTTTATCTGGAT
* *
30540 AAAAATCCAGTTTTTT-AAAAAAACCGGTTTTTTATCTGGAT
1 AAAAAACCGGTTTTTTAAAAAAAACCGGTTTTTTATCTGGAT
30581 AAAAAACCGGTTTTTTA
1 AAAAAACCGGTTTTTTA
30598 TCCAGTTTGA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
39 16 0.32
40 16 0.32
41 18 0.36
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (42 bp):
AAAAAACCGGTTTTTTAAAAAAAACCGGTTTTTTATCTGGAT
Found at i:30618 original size:28 final size:25
Alignment explanation
Indices: 30556--30643 Score: 99
Period size: 24 Copynumber: 3.5 Consensus size: 25
30546 CCAGTTTTTT
30556 AAAAAAACCGGTTTTTTAT-CTGGA
1 AAAAAAACCGGTTTTTTATCCTGGA
* *
30580 TAAAAAACCGGTTTTTTATCCAGTTTGA
1 AAAAAAACCGGTTTTTTATCC---TGGA
* *
30608 AAAAAAACCGGTTTTTAATCC-GGT
1 AAAAAAACCGGTTTTTTATCCTGGA
30632 AAAAAAACCGGT
1 AAAAAAACCGGT
30644 CGTTCAATTT
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
24 31 0.57
25 1 0.02
28 22 0.41
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.31
Consensus pattern (25 bp):
AAAAAAACCGGTTTTTTATCCTGGA
Found at i:31476 original size:21 final size:18
Alignment explanation
Indices: 31434--31481 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 18
31424 ATATTGATTC
31434 TTTTATAAATTTATATAAA
1 TTTTA-AAATTTATATAAA
31453 TTTTAAAATTTATATTTGAAA
1 TTTTAAAATTTATA--T-AAA
31474 TTTTAAAA
1 TTTTAAAA
31482 ACTAAAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 9 0.35
19 5 0.19
20 1 0.04
21 11 0.42
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (18 bp):
TTTTAAAATTTATATAAA
Found at i:31990 original size:22 final size:22
Alignment explanation
Indices: 31965--32009 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
31955 CATCGAATTC
*
31965 ACTTTATTCATTCGCATGACAA
1 ACTTTATTCATTCACATGACAA
31987 ACTTTATTCATTCACATGACAA
1 ACTTTATTCATTCACATGACAA
32009 A
1 A
32010 ATATTGTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.36
Consensus pattern (22 bp):
ACTTTATTCATTCACATGACAA
Found at i:32569 original size:20 final size:20
Alignment explanation
Indices: 32544--32625 Score: 132
Period size: 20 Copynumber: 4.2 Consensus size: 20
32534 TAAATACATA
32544 TATGGTTCGTACAATTTCTC
1 TATGGTTCGTACAATTTCTC
*
32564 TATGGTTCGTACAATTCCTC
1 TATGGTTCGTACAATTTCTC
32584 TATGGTTCGTACAATTAT-T-
1 TATGGTTCGTACAATT-TCTC
32603 TATGGTTCGTACAATTTCTC
1 TATGGTTCGTACAATTTCTC
32623 TAT
1 TAT
32626 TTTTTTTCAC
Statistics
Matches: 57, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
18 1 0.02
19 17 0.30
20 39 0.68
ACGTcount: A:0.22, C:0.18, G:0.15, T:0.45
Consensus pattern (20 bp):
TATGGTTCGTACAATTTCTC
Found at i:32618 original size:39 final size:40
Alignment explanation
Indices: 32544--32625 Score: 132
Period size: 39 Copynumber: 2.1 Consensus size: 40
32534 TAAATACATA
32544 TATGGTTCGTACAATTTCTCTATGGTTCGTACAATTCCTC
1 TATGGTTCGTACAATTTCTCTATGGTTCGTACAATTCCTC
*
32584 TATGGTTCGTACAATTAT-T-TATGGTTCGTACAATTTCTC
1 TATGGTTCGTACAATT-TCTCTATGGTTCGTACAATTCCTC
32623 TAT
1 TAT
32626 TTTTTTTCAC
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
39 22 0.55
40 17 0.43
41 1 0.03
ACGTcount: A:0.22, C:0.18, G:0.15, T:0.45
Consensus pattern (40 bp):
TATGGTTCGTACAATTTCTCTATGGTTCGTACAATTCCTC
Found at i:32801 original size:20 final size:20
Alignment explanation
Indices: 32753--32865 Score: 102
Period size: 21 Copynumber: 5.6 Consensus size: 20
32743 AAATGACCAA
*
32753 CAAAATCGCAATGCGATCT-
1 CAAAATCGCAACGCGATCTC
*
32772 CTAAATCGCAACGCGATCTC
1 CAAAATCGCAACGCGATCTC
** * *
32792 CAGTATCGCAACGCGATAATA
1 CAAAATCGCAACGCGAT-CTC
* * *
32813 CAAAATCGCAATGCGATAATA
1 CAAAATCGCAACGCGAT-CTC
32834 CAAAATCGCAACGCGATCTC
1 CAAAATCGCAACGCGATCTC
**
32854 CAGTATCGCAAC
1 CAAAATCGCAAC
32866 ACAGTTCCAA
Statistics
Matches: 77, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
19 17 0.22
20 25 0.32
21 35 0.45
ACGTcount: A:0.37, C:0.28, G:0.16, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATCTC
Found at i:32882 original size:60 final size:59
Alignment explanation
Indices: 32752--32909 Score: 178
Period size: 60 Copynumber: 2.6 Consensus size: 59
32742 AAAATGACCA
* * *
32752 ACAAAATCGCAATGCGATCTCTAAATCGCAACGCGATCTCCAGTATCGCAACGCGATAAT
1 ACAAAATCGCAATGCGATATCAAAATCGCAACGCGATCTCCAGTATCGCAACACGAT-AT
32812 ACAAAATCGCAATGCGATAATACAAAATCGCAACGCGATCTCCAGTATCGCAACAC-AGT-T
1 ACAAAATCGCAATGCGAT-AT-CAAAATCGCAACGCGATCTCCAGTATCGCAACACGA-TAT
* ** *
32872 CCAAGTTCGCAATGCGA-ATCTAACTATCGCAACGCGAT
1 ACAAAATCGCAATGCGATATC-AA-AATCGCAACGCGAT
32910 AATACAAAAT
Statistics
Matches: 86, Mismatches: 7, Indels: 11
0.83 0.07 0.11
Matches are distributed among these distances:
57 1 0.01
58 4 0.05
59 13 0.15
60 33 0.38
61 2 0.02
62 33 0.38
ACGTcount: A:0.36, C:0.28, G:0.16, T:0.20
Consensus pattern (59 bp):
ACAAAATCGCAATGCGATATCAAAATCGCAACGCGATCTCCAGTATCGCAACACGATAT
Found at i:32927 original size:41 final size:42
Alignment explanation
Indices: 32817--32929 Score: 110
Period size: 39 Copynumber: 2.8 Consensus size: 42
32807 ATAATACAAA
* * * *
32817 ATCGCAATGCGATAATACAAAATCGCAACGCG-ATCTCCAGT
1 ATCGCAACGCGATAATACAAAATCGCAATGCGAATCTCAACT
* * **
32858 ATCGCAACAC-AGT--TCCAAGTTCGCAATGCGAATCT-AACT
1 ATCGCAACGCGA-TAATACAAAATCGCAATGCGAATCTCAACT
32897 ATCGCAACGCGATAATACAAAATCGCAATGCGA
1 ATCGCAACGCGATAATACAAAATCGCAATGCGA
32930 TTTTCAAAGC
Statistics
Matches: 55, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
39 25 0.45
40 6 0.11
41 24 0.44
ACGTcount: A:0.37, C:0.27, G:0.17, T:0.19
Consensus pattern (42 bp):
ATCGCAACGCGATAATACAAAATCGCAATGCGAATCTCAACT
Found at i:33120 original size:22 final size:22
Alignment explanation
Indices: 33095--33141 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
33085 CTACGGCGAC
*
33095 ATCTGTCCCCATCTCCGACGAA
1 ATCTGTCACCATCTCCGACGAA
*
33117 ATCTGTCACCATCTCCGGCGAA
1 ATCTGTCACCATCTCCGACGAA
33139 ATC
1 ATC
33142 CGTCTATCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.23, C:0.38, G:0.15, T:0.23
Consensus pattern (22 bp):
ATCTGTCACCATCTCCGACGAA
Found at i:33550 original size:19 final size:19
Alignment explanation
Indices: 33526--33703 Score: 143
Period size: 20 Copynumber: 9.4 Consensus size: 19
33516 AAATTGCAAC
33526 GCGATTTT-AGTTTCGCGTT
1 GCGATTTTCA-TTTCGCGTT
*
33545 GCGATTTTC---T--CGAT
1 GCGATTTTCATTTCGCGTT
*
33559 GCGATTTTCATTTCGTGTT
1 GCGATTTTCATTTCGCGTT
*
33578 GCGATTTTCATTTCGTGTT
1 GCGATTTTCATTTCGCGTT
33597 GCGATTTTCATTTCGCGTT
1 GCGATTTTCATTTCGCGTT
** *
33616 GCGATAGTCAAATTCGCGTT
1 GCGATTTTC-ATTTCGCGTT
** *
33636 GCGATAGTCAAATTCGCGTT
1 GCGATTTTC-ATTTCGCGTT
** *
33656 GCGATAGTCATTTTCGTGTT
1 GCGATTTTCA-TTTCGCGTT
**
33676 GCGATTTTCATTTTCGTATT
1 GCGATTTTCA-TTTCGCGTT
33696 GCGATTTT
1 GCGATTTT
33704 AAGTTTCAGA
Statistics
Matches: 139, Mismatches: 12, Indels: 15
0.84 0.07 0.09
Matches are distributed among these distances:
14 12 0.09
16 1 0.01
17 1 0.01
19 55 0.40
20 70 0.50
ACGTcount: A:0.15, C:0.17, G:0.22, T:0.45
Consensus pattern (19 bp):
GCGATTTTCATTTCGCGTT
Found at i:33573 original size:33 final size:35
Alignment explanation
Indices: 33526--33620 Score: 115
Period size: 33 Copynumber: 2.7 Consensus size: 35
33516 AAATTGCAAC
33526 GCGATTTT-AGTTTCGCGTTGCGATTTTC-TC-GAT
1 GCGATTTTCA-TTTCGCGTTGCGATTTTCTTCGGAT
* *
33559 GCGATTTTCATTTCGTGTTGCGATTTTCATTTCGTGTT
1 GCGATTTTCATTTCGCGTTGCGATTTTC--TTCG-GAT
33597 GCGATTTTCATTTCGCGTTGCGAT
1 GCGATTTTCATTTCGCGTTGCGAT
33621 AGTCAAATTC
Statistics
Matches: 53, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
33 25 0.47
34 1 0.02
36 2 0.04
38 25 0.47
ACGTcount: A:0.12, C:0.18, G:0.23, T:0.47
Consensus pattern (35 bp):
GCGATTTTCATTTCGCGTTGCGATTTTCTTCGGAT
Found at i:33686 original size:20 final size:19
Alignment explanation
Indices: 33558--33703 Score: 148
Period size: 20 Copynumber: 7.5 Consensus size: 19
33548 ATTTTCTCGA
33558 TGCGATTTTCATTTCGTGT
1 TGCGATTTTCATTTCGTGT
33577 TGCGATTTTCATTTCGTGT
1 TGCGATTTTCATTTCGTGT
*
33596 TGCGATTTTCATTTCGCGT
1 TGCGATTTTCATTTCGTGT
** * *
33615 TGCGATAGTCAAATTCGCGT
1 TGCGATTTTC-ATTTCGTGT
** * *
33635 TGCGATAGTCAAATTCGCGT
1 TGCGATTTTC-ATTTCGTGT
**
33655 TGCGATAGTCATTTTCGTGT
1 TGCGATTTTCA-TTTCGTGT
*
33675 TGCGATTTTCATTTTCGTAT
1 TGCGATTTTCA-TTTCGTGT
33695 TGCGATTTT
1 TGCGATTTT
33704 AAGTTTCAGA
Statistics
Matches: 116, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
19 46 0.40
20 70 0.60
ACGTcount: A:0.16, C:0.17, G:0.22, T:0.45
Consensus pattern (19 bp):
TGCGATTTTCATTTCGTGT
Found at i:33700 original size:40 final size:38
Alignment explanation
Indices: 33558--33688 Score: 163
Period size: 40 Copynumber: 3.4 Consensus size: 38
33548 ATTTTCTCGA
* **
33558 TGCGATTTTCATTTCGTGTTGCGATTTTCATTTCGTGT
1 TGCGATTTTCATTTCGCGTTGCGATAGTCATTTCGTGT
* *
33596 TGCGATTTTCATTTCGCGTTGCGATAGTCAAATTCGCGT
1 TGCGATTTTCATTTCGCGTTGCGATAGTC-ATTTCGTGT
** *
33635 TGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGTGT
1 TGCGATTTTC-ATTTCGCGTTGCGATAGTCA-TTTCGTGT
33675 TGCGATTTTCATTT
1 TGCGATTTTCATTT
33689 TCGTATTGCG
Statistics
Matches: 77, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
38 26 0.34
39 19 0.25
40 32 0.42
ACGTcount: A:0.16, C:0.18, G:0.22, T:0.44
Consensus pattern (38 bp):
TGCGATTTTCATTTCGCGTTGCGATAGTCATTTCGTGT
Found at i:33710 original size:20 final size:20
Alignment explanation
Indices: 33667--33710 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
33657 CGATAGTCAT
* * *
33667 TTTCGTGTTGCGATTTTCAT
1 TTTCGTATTGCGATTTTAAG
33687 TTTCGTATTGCGATTTTAAG
1 TTTCGTATTGCGATTTTAAG
33707 TTTC
1 TTTC
33711 AGAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.18, T:0.55
Consensus pattern (20 bp):
TTTCGTATTGCGATTTTAAG
Found at i:35704 original size:20 final size:20
Alignment explanation
Indices: 35681--35718 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
35671 AATCGCAACG
*
35681 TGAAAATCGCAATGCGAAAA
1 TGAAAATCGCAACGCGAAAA
35701 TGAAAATCGCAACGCGAA
1 TGAAAATCGCAACGCGAA
35719 TTTAGTTTCG
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:0.47, C:0.18, G:0.21, T:0.13
Consensus pattern (20 bp):
TGAAAATCGCAACGCGAAAA
Found at i:35736 original size:19 final size:19
Alignment explanation
Indices: 35714--35755 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
35704 AAATCGCAAC
35714 GCGAATTTAGTTTCGCGTT
1 GCGAATTTAGTTTCGCGTT
* *
35733 GCGATTTTGGTTTCGCGTT
1 GCGAATTTAGTTTCGCGTT
35752 GCGA
1 GCGA
35756 TTTTTATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.12, C:0.17, G:0.31, T:0.40
Consensus pattern (19 bp):
GCGAATTTAGTTTCGCGTT
Found at i:35756 original size:19 final size:19
Alignment explanation
Indices: 35723--35759 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
35713 CGCGAATTTA
35723 GTTTCGCGTTGCGATTTTG
1 GTTTCGCGTTGCGATTTTG
35742 GTTTCGCGTTGCGATTTT
1 GTTTCGCGTTGCGATTTT
35760 TATTTTGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.05, C:0.16, G:0.30, T:0.49
Consensus pattern (19 bp):
GTTTCGCGTTGCGATTTTG
Found at i:35806 original size:20 final size:20
Alignment explanation
Indices: 35781--35829 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
35771 GTGATTATCC
35781 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
**
35801 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
35821 CGTTGCGAT
1 CGTTGCGAT
35830 TTTAAGTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.18, C:0.20, G:0.27, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:35839 original size:20 final size:20
Alignment explanation
Indices: 35797--35859 Score: 81
Period size: 20 Copynumber: 3.1 Consensus size: 20
35787 GATAGTCAAA
** * *
35797 TTCGCGTTGCGATAGTCATT
1 TTCGCGTTGCGATTTTAAGT
35817 TTCGCGTTGCGATTTTAAGT
1 TTCGCGTTGCGATTTTAAGT
*
35837 TTCGTGTTGCGATTTTAAGT
1 TTCGCGTTGCGATTTTAAGT
35857 TTC
1 TTC
35860 AGAAACTATT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.14, C:0.16, G:0.24, T:0.46
Consensus pattern (20 bp):
TTCGCGTTGCGATTTTAAGT
Found at i:36409 original size:21 final size:21
Alignment explanation
Indices: 36335--36416 Score: 92
Period size: 21 Copynumber: 3.9 Consensus size: 21
36325 TCTCGACTCA
36335 CCTGTCATCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGGCC
* ** *
36356 CCTATCATCCCTCAAGAGTCC
1 CCTGTCATCGTTCAAGAGGCC
** *
36377 CCTCCCACCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGGCC
*
36398 CCTGTCATCGTTGAAGAGG
1 CCTGTCATCGTTCAAGAGG
36417 TTCATCCGAC
Statistics
Matches: 47, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.21, C:0.37, G:0.21, T:0.22
Consensus pattern (21 bp):
CCTGTCATCGTTCAAGAGGCC
Found at i:37980 original size:20 final size:20
Alignment explanation
Indices: 37930--38117 Score: 186
Period size: 20 Copynumber: 10.1 Consensus size: 20
37920 ATTTGTTGAT
*
37930 TTCGCGTTGCGAAAGTC-AA
1 TTCGCGTTGCGATAGTCAAA
37949 TTCGCGTTGCGATAGTCAAA
1 TTCGCGTTGCGATAGTCAAA
* *
37969 TACGCTTTGCGAT--T----
1 TTCGCGTTGCGATAGTCAAA
*
37983 TTCTCGTTGCGATAGTCAAA
1 TTCGCGTTGCGATAGTCAAA
* *
38003 TTCCCGTTGCGATAATCAAA
1 TTCGCGTTGCGATAGTCAAA
*
38023 TTCACGTTGCGATAGTCAAA
1 TTCGCGTTGCGATAGTCAAA
38043 TTCGCGTTGCGAT--T----
1 TTCGCGTTGCGATAGTCAAA
* *
38057 TTTGCGTTGCGATAATCAAA
1 TTCGCGTTGCGATAGTCAAA
*
38077 TTCACGTTGCGATAGTCAAA
1 TTCGCGTTGCGATAGTCAAA
*
38097 TTCGCGTTGCGATATTCAAA
1 TTCGCGTTGCGATAGTCAAA
38117 T
1 T
38118 GAATGTGTAA
Statistics
Matches: 139, Mismatches: 17, Indels: 25
0.77 0.09 0.14
Matches are distributed among these distances:
14 22 0.16
16 2 0.01
18 2 0.01
19 16 0.12
20 97 0.70
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (20 bp):
TTCGCGTTGCGATAGTCAAA
Found at i:37996 original size:34 final size:34
Alignment explanation
Indices: 37953--38089 Score: 150
Period size: 34 Copynumber: 3.9 Consensus size: 34
37943 AGTCAATTCG
* *
37953 CGTTGCGATAGTCAAATACGCTTTGCGATTTTCT
1 CGTTGCGATAGTCAAATTCGCGTTGCGATTTTCT
* *
37987 CGTTGCGATAGTCAAATTCCCGTTGCGATAATCAAATTCA
1 CGTTGCGATAGTCAAATTCGCGTTGCGAT--T----TTCT
38027 CGTTGCGATAGTCAAATTCGCGTTGCGATTTT-T
1 CGTTGCGATAGTCAAATTCGCGTTGCGATTTTCT
* *
38060 GCGTTGCGATAATCAAATTCACGTTGCGAT
1 -CGTTGCGATAGTCAAATTCGCGTTGCGAT
38090 AGTCAAATTC
Statistics
Matches: 88, Mismatches: 8, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
34 55 0.62
36 1 0.01
38 1 0.01
40 31 0.35
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.34
Consensus pattern (34 bp):
CGTTGCGATAGTCAAATTCGCGTTGCGATTTTCT
Found at i:38033 original size:54 final size:53
Alignment explanation
Indices: 37929--38035 Score: 142
Period size: 54 Copynumber: 2.0 Consensus size: 53
37919 TATTTGTTGA
* * * *
37929 TTTCGCGTTGCGAAAGTCAATTCGCGTTGCGATAGTCAAATACGCTTTGCGAT
1 TTTCGCGTTGCGAAAGTCAATTCCCGTTGCGATAATCAAATACACGTTGCGAT
* * *
37982 TTTCTCGTTGCGATAGTCAAATTCCCGTTGCGATAATCAAATTCACGTTGCGAT
1 TTTCGCGTTGCGAAAGTC-AATTCCCGTTGCGATAATCAAATACACGTTGCGAT
38036 AGTCAAATTC
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
53 16 0.35
54 30 0.65
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.34
Consensus pattern (53 bp):
TTTCGCGTTGCGAAAGTCAATTCCCGTTGCGATAATCAAATACACGTTGCGAT
Found at i:38034 original size:74 final size:74
Alignment explanation
Indices: 37934--38117 Score: 266
Period size: 74 Copynumber: 2.5 Consensus size: 74
37924 GTTGATTTCG
*
37934 CGTTGCGA-AAGTC-AATTCGCGTTGCGATAGTCAAATACGCTTTGCGATTTTCT-CGTTGCGAT
1 CGTTGCGATAA-TCAAATTCGCGTTGCGATAGTCAAATACGCGTTGCGATTTT-TGCGTTGCGAT
* *
37996 AGTCAAATTCC
64 AATCAAATTCA
* *
38007 CGTTGCGATAATCAAATTCACGTTGCGATAGTCAAATTCGCGTTGCGATTTTTGCGTTGCGATAA
1 CGTTGCGATAATCAAATTCGCGTTGCGATAGTCAAATACGCGTTGCGATTTTTGCGTTGCGATAA
38072 TCAAATTCA
66 TCAAATTCA
* *
38081 CGTTGCGATAGTCAAATTCGCGTTGCGATATTCAAAT
1 CGTTGCGATAATCAAATTCGCGTTGCGATAGTCAAAT
38118 GAATGTGTAA
Statistics
Matches: 100, Mismatches: 8, Indels: 5
0.88 0.07 0.04
Matches are distributed among these distances:
73 11 0.11
74 89 0.89
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (74 bp):
CGTTGCGATAATCAAATTCGCGTTGCGATAGTCAAATACGCGTTGCGATTTTTGCGTTGCGATAA
TCAAATTCA
Found at i:38065 original size:54 final size:54
Alignment explanation
Indices: 38007--38109 Score: 206
Period size: 54 Copynumber: 1.9 Consensus size: 54
37997 GTCAAATTCC
38007 CGTTGCGATAATCAAATTCACGTTGCGATAGTCAAATTCGCGTTGCGATTTTTG
1 CGTTGCGATAATCAAATTCACGTTGCGATAGTCAAATTCGCGTTGCGATTTTTG
38061 CGTTGCGATAATCAAATTCACGTTGCGATAGTCAAATTCGCGTTGCGAT
1 CGTTGCGATAATCAAATTCACGTTGCGATAGTCAAATTCGCGTTGCGAT
38110 ATTCAAATGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.33
Consensus pattern (54 bp):
CGTTGCGATAATCAAATTCACGTTGCGATAGTCAAATTCGCGTTGCGATTTTTG
Found at i:40618 original size:24 final size:24
Alignment explanation
Indices: 40584--40637 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
40574 CTGAAACATC
40584 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
40608 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
40632 ATCAAA
1 ATCAAA
40638 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:40651 original size:24 final size:24
Alignment explanation
Indices: 40584--40651 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
40574 CTGAAACATC
* * *
40584 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
40608 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
40632 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
40652 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:42006 original size:9 final size:9
Alignment explanation
Indices: 41992--42085 Score: 62
Period size: 10 Copynumber: 9.8 Consensus size: 9
41982 GGCTGCTGGA
41992 AACCGGTTT
1 AACCGGTTT
42001 AACCGGTTTT
1 AACCGG-TTT
42011 CAACCGGTTCT
1 -AACCGGTT-T
*
42022 GACCGGTTT
1 AACCGGTTT
*
42031 GACCGGTTT
1 AACCGGTTT
* *
42040 CAATCGGTTCG
1 -AACCGGTT-T
42051 AACCGGTTT
1 AACCGGTTT
* *
42060 GACCGGTCTG
1 AACCGGT-TT
*
42070 AATCGGTTT
1 AACCGGTTT
*
42079 GACCGGT
1 AACCGGT
42086 CTGACCCGAC
Statistics
Matches: 66, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
9 28 0.42
10 31 0.47
11 7 0.11
ACGTcount: A:0.17, C:0.24, G:0.28, T:0.31
Consensus pattern (9 bp):
AACCGGTTT
Found at i:42017 original size:20 final size:21
Alignment explanation
Indices: 41992--42030 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
41982 GGCTGCTGGA
41992 AACCGGTT-TAACCGGTTTTC
1 AACCGGTTCTAACCGGTTTTC
*
42012 AACCGGTTCTGACCGGTTT
1 AACCGGTTCTAACCGGTTT
42031 GACCGGTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.18, C:0.26, G:0.23, T:0.33
Consensus pattern (21 bp):
AACCGGTTCTAACCGGTTTTC
Found at i:42037 original size:19 final size:19
Alignment explanation
Indices: 41994--42091 Score: 69
Period size: 19 Copynumber: 5.1 Consensus size: 19
41984 CTGCTGGAAA
* * *
41994 CCGGTTTAACCGGTTTTCAA
1 CCGGTTTGACCGGTTCT-GA
42014 CCGGTTCTGACCGGTT-TGA
1 CCGGTT-TGACCGGTTCTGA
* *
42033 CCGGTTTCAATCGGTTC-GAA
1 CCGGTTT-GACCGGTTCTG-A
42053 CCGGTTTGACCGG-TCTGAA
1 CCGGTTTGACCGGTTCTG-A
*
42072 TCGGTTTGACCGG-TCTGA
1 CCGGTTTGACCGGTTCTGA
42090 CC
1 CC
42092 CGACCCGACC
Statistics
Matches: 65, Mismatches: 8, Indels: 12
0.76 0.09 0.14
Matches are distributed among these distances:
18 5 0.08
19 37 0.57
20 15 0.23
21 8 0.12
ACGTcount: A:0.15, C:0.27, G:0.28, T:0.31
Consensus pattern (19 bp):
CCGGTTTGACCGGTTCTGA
Found at i:42055 original size:29 final size:28
Alignment explanation
Indices: 41993--42091 Score: 117
Period size: 29 Copynumber: 3.4 Consensus size: 28
41983 GCTGCTGGAA
* *
41993 ACCGGTTTAACCGGTTTTCAACCGGTTCTG
1 ACCGGTTTGACCGG-TTTCAATCGGTTC-G
42023 ACCGGTTTGACCGGTTTCAATCGGTTCG
1 ACCGGTTTGACCGGTTTCAATCGGTTCG
* * *
42051 AACCGGTTTGACCGGTCTGAATCGGTTTG
1 -ACCGGTTTGACCGGTTTCAATCGGTTCG
*
42080 ACCGGTCTGACC
1 ACCGGTTTGACC
42092 CGACCCGACC
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
28 12 0.19
29 37 0.60
30 13 0.21
ACGTcount: A:0.16, C:0.26, G:0.27, T:0.30
Consensus pattern (28 bp):
ACCGGTTTGACCGGTTTCAATCGGTTCG
Found at i:42098 original size:5 final size:5
Alignment explanation
Indices: 42088--42145 Score: 53
Period size: 5 Copynumber: 10.8 Consensus size: 5
42078 TGACCGGTCT
* **
42088 GACCC GACCC GACCGTT GACCC GACCC GACCC GATCGTT GACCC GACCC
1 GACCC GACCC GACC--C GACCC GACCC GACCC GA-C-CC GACCC GACCC
42137 GACCC GACC
1 GACCC GACC
42146 GTTGACCGTT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
5 35 0.81
6 2 0.05
7 6 0.14
ACGTcount: A:0.19, C:0.50, G:0.22, T:0.09
Consensus pattern (5 bp):
GACCC
Found at i:42114 original size:22 final size:22
Alignment explanation
Indices: 42088--42152 Score: 121
Period size: 22 Copynumber: 3.0 Consensus size: 22
42078 TGACCGGTCT
42088 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
*
42110 GACCCGACCCGATCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
42132 GACCCGACCCGACCGTTGACC
1 GACCCGACCCGACCGTTGACC
42153 GTTGACCGTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.18, C:0.48, G:0.23, T:0.11
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCC
Found at i:42154 original size:7 final size:7
Alignment explanation
Indices: 42142--42172 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
42132 GACCCGACCC
42142 GACCGTT
1 GACCGTT
42149 GACCGTT
1 GACCGTT
42156 GACCGTT
1 GACCGTT
42163 GACCGTT
1 GACCGTT
42170 GAC
1 GAC
42173 TTTCTTTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:43110 original size:63 final size:63
Alignment explanation
Indices: 43042--43165 Score: 153
Period size: 63 Copynumber: 2.0 Consensus size: 63
43032 CTAATGTGAC
* * * * *
43042 TCTTAGGTAGGCTCTACGGCCCTGAGATC-ATTCTCGGGTAGGCCCTGC-GGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCCACAGCCCCGAAATCTA-TCTCGGGTAGGCCCT-CAGGCCCTAAGATGTGT
* *
43105 TCTTAGGTAGGCCCCACAGCCCCGAAATCTATCTTGGGTAGGCTCTCAGGCCCTAAGATGT
1 TCTTAGGTAGGCCCCACAGCCCCGAAATCTATCTCGGGTAGGCCCTCAGGCCCTAAGATGT
43166 TCCCTTAGGG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
62 1 0.02
63 50 0.96
64 1 0.02
ACGTcount: A:0.19, C:0.28, G:0.27, T:0.26
Consensus pattern (63 bp):
TCTTAGGTAGGCCCCACAGCCCCGAAATCTATCTCGGGTAGGCCCTCAGGCCCTAAGATGTGT
Found at i:43116 original size:32 final size:31
Alignment explanation
Indices: 43042--43118 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 31
43032 CTAATGTGAC
* *
43042 TCTTAGGTAGGCTCTACGGCCCTGAGATCAT
1 TCTTAGGTAGGCCCTACGGCCCTAAGATCAT
** * **
43073 TCTCGGGTAGGCCCTGCGGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCTACGGCCCTAAGAT-CAT
43105 TCTTAGGTAGGCCC
1 TCTTAGGTAGGCCC
43119 CACAGCCCCG
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
31 23 0.64
32 13 0.36
ACGTcount: A:0.16, C:0.27, G:0.30, T:0.27
Consensus pattern (31 bp):
TCTTAGGTAGGCCCTACGGCCCTAAGATCAT
Found at i:49380 original size:10 final size:9
Alignment explanation
Indices: 49345--49443 Score: 81
Period size: 10 Copynumber: 10.3 Consensus size: 9
49335 GCTGCTGGAA
*
49345 ACCGGTTTA
1 ACCGGTTTG
*
49354 ACCGGTTTTCA
1 ACCGG-TTT-G
49365 ACCGGTTCTG
1 ACCGGTT-TG
49375 ACCGGTTTG
1 ACCGGTTTG
*
49384 ACCGGTTTCA
1 ACCGGTTT-G
*
49394 ACCGGTTCG
1 ACCGGTTTG
49403 AACCGGTTTG
1 -ACCGGTTTG
*
49413 ACCGGTCTG
1 ACCGGTTTG
*
49422 AATCGGTTTG
1 -ACCGGTTTG
*
49432 ACCGGTCTG
1 ACCGGTTTG
49441 ACC
1 ACC
49444 CGACTCGACC
Statistics
Matches: 74, Mismatches: 10, Indels: 12
0.77 0.10 0.12
Matches are distributed among these distances:
9 33 0.45
10 34 0.46
11 7 0.09
ACGTcount: A:0.16, C:0.27, G:0.27, T:0.29
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:49389 original size:19 final size:19
Alignment explanation
Indices: 49346--49443 Score: 78
Period size: 19 Copynumber: 5.1 Consensus size: 19
49336 CTGCTGGAAA
* * *
49346 CCGGTTTAACCGGTTTTCAA
1 CCGGTTTGACCGGTTCT-GA
49366 CCGGTTCTGACCGGTT-TGA
1 CCGGTT-TGACCGGTTCTGA
*
49385 CCGGTTTCAACCGGTTC-GAA
1 CCGGTTT-GACCGGTTCTG-A
49405 CCGGTTTGACCGG-TCTGAA
1 CCGGTTTGACCGGTTCTG-A
*
49424 TCGGTTTGACCGG-TCTGA
1 CCGGTTTGACCGGTTCTGA
49442 CC
1 CC
49444 CGACTCGACC
Statistics
Matches: 67, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
18 5 0.07
19 39 0.58
20 15 0.22
21 8 0.12
ACGTcount: A:0.15, C:0.28, G:0.28, T:0.30
Consensus pattern (19 bp):
CCGGTTTGACCGGTTCTGA
Found at i:49407 original size:29 final size:30
Alignment explanation
Indices: 49344--49443 Score: 118
Period size: 29 Copynumber: 3.4 Consensus size: 30
49334 GGCTGCTGGA
*
49344 AACCGGTTTAACCGGTTTTCAACCGGTTCTG
1 AACCGGTTTGACCGG-TTTCAACCGGTTCTG
49375 -ACCGGTTTGACCGGTTTCAACCGGTTC-G
1 AACCGGTTTGACCGGTTTCAACCGGTTCTG
* * *
49403 AACCGGTTTGACCGGTCTGAATCGGTT-TG
1 AACCGGTTTGACCGGTTTCAACCGGTTCTG
*
49432 -ACCGGTCTGACC
1 AACCGGTTTGACC
49444 CGACTCGACC
Statistics
Matches: 62, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
28 12 0.19
29 37 0.60
30 13 0.21
ACGTcount: A:0.17, C:0.27, G:0.27, T:0.29
Consensus pattern (30 bp):
AACCGGTTTGACCGGTTTCAACCGGTTCTG
Found at i:49466 original size:22 final size:22
Alignment explanation
Indices: 49440--49504 Score: 112
Period size: 22 Copynumber: 3.0 Consensus size: 22
49430 TGACCGGTCT
*
49440 GACCCGACTCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
*
49462 GACCCGACCCGATCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
49484 GACCCGACCCGACCGTTGACC
1 GACCCGACCCGACCGTTGACC
49505 GTTGACCGTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.18, C:0.46, G:0.23, T:0.12
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCC
Found at i:50455 original size:63 final size:63
Alignment explanation
Indices: 50387--50510 Score: 153
Period size: 63 Copynumber: 2.0 Consensus size: 63
50377 CTAATGTGAC
* ** * *
50387 TCTTAGGTAGGCTCTGCGGCCCTGAGATC-ATTCTCGGGTAGGCCCTGC-GGCCCTAAGATGTGT
1 TCTTAGATAGGCTCCACGGCCCCGAAATCTA-TCTCGGGTAGGCCCT-CAGGCCCTAAGATGTGT
* *
50450 TCTTAGATAGGCTCCACGGCCCCGAAATCTATCTTGGGTAGGCTCTCAGGCCCTAAGATGT
1 TCTTAGATAGGCTCCACGGCCCCGAAATCTATCTCGGGTAGGCCCTCAGGCCCTAAGATGT
50511 TCCCTTAGGG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
62 1 0.02
63 50 0.96
64 1 0.02
ACGTcount: A:0.18, C:0.27, G:0.28, T:0.27
Consensus pattern (63 bp):
TCTTAGATAGGCTCCACGGCCCCGAAATCTATCTCGGGTAGGCCCTCAGGCCCTAAGATGTGT
Found at i:51290 original size:20 final size:20
Alignment explanation
Indices: 51265--51332 Score: 127
Period size: 20 Copynumber: 3.4 Consensus size: 20
51255 GAAATTCAGT
51265 GTTGCGATAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
*
51285 GTTGCGATAGTCATAATCGC
1 GTTGCGATAGTCAGAATCGC
51305 GTTGCGATAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
51325 GTTGCGAT
1 GTTGCGAT
51333 TTACATATTC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (20 bp):
GTTGCGATAGTCAGAATCGC
Found at i:51316 original size:40 final size:40
Alignment explanation
Indices: 51265--51352 Score: 142
Period size: 40 Copynumber: 2.2 Consensus size: 40
51255 GAAATTCAGT
51265 GTTGCGATAGTCAGAATCGCGTTGCGATAGT-CATAATCGC
1 GTTGCGATAGTCAGAATCGCGTTGCGAT-GTACATAATCGC
* *
51305 GTTGCGATAGTCAGAATCGCGTTGCGATTTACATATTCGC
1 GTTGCGATAGTCAGAATCGCGTTGCGATGTACATAATCGC
51345 GTTGCGAT
1 GTTGCGAT
51353 TTACATATTC
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
39 1 0.02
40 44 0.98
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (40 bp):
GTTGCGATAGTCAGAATCGCGTTGCGATGTACATAATCGC
Found at i:51364 original size:20 final size:20
Alignment explanation
Indices: 51265--51352 Score: 124
Period size: 20 Copynumber: 4.4 Consensus size: 20
51255 GAAATTCAGT
*
51265 GTTGCGATAGTCAGAATCGC
1 GTTGCGATAGTCATAATCGC
51285 GTTGCGATAGTCATAATCGC
1 GTTGCGATAGTCATAATCGC
*
51305 GTTGCGATAGTCAGAATCGC
1 GTTGCGATAGTCATAATCGC
* *
51325 GTTGCGAT-TTACATATTCGC
1 GTTGCGATAGT-CATAATCGC
51345 GTTGCGAT
1 GTTGCGAT
51353 TTACATATTC
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
19 1 0.02
20 61 0.98
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (20 bp):
GTTGCGATAGTCATAATCGC
Found at i:51369 original size:20 final size:20
Alignment explanation
Indices: 51281--51370 Score: 94
Period size: 20 Copynumber: 4.5 Consensus size: 20
51271 ATAGTCAGAA
* *
51281 TCGCGTTGCGATAGT-CATAA
1 TCGCGTTGCGAT-TTACATAT
* * *
51301 TCGCGTTGCGATAGT-CAGAA
1 TCGCGTTGCGAT-TTACATAT
51321 TCGCGTTGCGATTTACATAT
1 TCGCGTTGCGATTTACATAT
51341 TCGCGTTGCGATTTACATAT
1 TCGCGTTGCGATTTACATAT
*
51361 TCGCATTGCG
1 TCGCGTTGCG
51371 GTTTTGGAAA
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
19 1 0.02
20 63 0.98
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.33
Consensus pattern (20 bp):
TCGCGTTGCGATTTACATAT
Found at i:51431 original size:101 final size:100
Alignment explanation
Indices: 51287--51476 Score: 215
Period size: 101 Copynumber: 1.9 Consensus size: 100
51277 AGAATCGCGT
* * * * *
51287 TGCGATAGTCATAATCGCGTTGCGATAGTCAGAATCGCGTTGCGAT-TTACATATTCGCGTTGCG
1 TGCGATAGTCAAAATCGCGTTGCGATAGTCAGAAACGAGTTGCGATACTACAGA-TCGCGTTGCG
* *
51351 ATTTACATATTCGCATTGCGGTTTTGGAAAATCGCAA
65 ATTTACAGA-TCGCATTGCGATTTTGGAAAATCGCAA
* * **
51388 TGCGATAGTCAAAATCGCGTTGCGA-A-TCTGGAAACTGATTTGCGATACTGGAGATCGCGTTGC
1 TGCGATAGTCAAAATCGCGTTGCGATAGTC-AGAAAC-GAGTTGCGATACTACAGATCGCGTTGC
*
51451 GATTTAGAGATCGCATTGCGATTTTG
64 GATTTACAGATCGCATTGCGATTTTG
51477 TTGGTCATTT
Statistics
Matches: 74, Mismatches: 12, Indels: 7
0.80 0.13 0.08
Matches are distributed among these distances:
99 2 0.03
100 20 0.27
101 49 0.66
102 3 0.04
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.32
Consensus pattern (100 bp):
TGCGATAGTCAAAATCGCGTTGCGATAGTCAGAAACGAGTTGCGATACTACAGATCGCGTTGCGA
TTTACAGATCGCATTGCGATTTTGGAAAATCGCAA
Found at i:51450 original size:20 final size:19
Alignment explanation
Indices: 51427--51472 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
51417 GGAAACTGAT
* *
51427 TTGCGATACTGGAGATCGCG
1 TTGCGAT-CTAGAGATCGCA
*
51447 TTGCGATTTAGAGATCGCA
1 TTGCGATCTAGAGATCGCA
51466 TTGCGAT
1 TTGCGAT
51473 TTTGTTGGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.30
Consensus pattern (19 bp):
TTGCGATCTAGAGATCGCA
Found at i:51462 original size:19 final size:19
Alignment explanation
Indices: 51438--51474 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
51428 TGCGATACTG
*
51438 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCGATTTA
51457 GAGATCGCATTGCGATTT
1 GAGATCGCATTGCGATTT
51475 TGTTGGTCAT
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:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:54379 original size:20 final size:20
Alignment explanation
Indices: 54329--54379 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
54319 CTTTCGATGC
* *
54329 TAGAGACTATGGATACTCAA
1 TAGAGAGTATGAATACTCAA
* *
54349 TCGAGGAGTATGAATGCTCAA
1 TAGA-GAGTATGAATACTCAA
54370 TAGAGAGTAT
1 TAGAGAGTAT
54380 ATGTACTTGG
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
20 9 0.36
21 16 0.64
ACGTcount: A:0.37, C:0.12, G:0.25, T:0.25
Consensus pattern (20 bp):
TAGAGAGTATGAATACTCAA
Found at i:55035 original size:52 final size:52
Alignment explanation
Indices: 54957--55061 Score: 210
Period size: 52 Copynumber: 2.0 Consensus size: 52
54947 GCTTCTCCAC
54957 CTGTTTAATGGGGTTTCTTTAATATCTTCTTATTTCAAAGACAAATCCTTGT
1 CTGTTTAATGGGGTTTCTTTAATATCTTCTTATTTCAAAGACAAATCCTTGT
55009 CTGTTTAATGGGGTTTCTTTAATATCTTCTTATTTCAAAGACAAATCCTTGT
1 CTGTTTAATGGGGTTTCTTTAATATCTTCTTATTTCAAAGACAAATCCTTGT
55061 C
1 C
55062 GGGGATTCAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.25, C:0.16, G:0.13, T:0.46
Consensus pattern (52 bp):
CTGTTTAATGGGGTTTCTTTAATATCTTCTTATTTCAAAGACAAATCCTTGT
Found at i:55420 original size:43 final size:43
Alignment explanation
Indices: 55302--55548 Score: 186
Period size: 43 Copynumber: 5.9 Consensus size: 43
55292 ATAGGTTAAG
* * * *
55302 ATCTATCGTGGCATTTTTGGAACAAATGCCTCAAAA-TGTCGAT
1 ATCTATAGCGGCATTTTTGGAACAAACGCCGCAAAAGT-TCGAT
* *
55345 ATCTATAGCGGC-GTTTTGGAACAAACCCCGCAAAAGTTCGAT
1 ATCTATAGCGGCATTTTTGGAACAAACGCCGCAAAAGTTCGAT
* * * *
55387 ATATATAGCGGCATTTTTGGAACAAACGTCGCAAAAGGTCGAG
1 ATCTATAGCGGCATTTTTGGAACAAACGCCGCAAAAGTTCGAT
* * * * * *
55430 ATATATAGCGG--TGTTT-CAAAAAACGTCGTAAAA-TATC-AT
1 ATCTATAGCGGCATTTTTGGAACAAACGCCGCAAAAGT-TCGAT
** * * * *
55469 ATCTATAGCGGTGTTTTTAGAATAAACACCGCAAAAAG-TCGAG
1 ATCTATAGCGGCATTTTTGGAACAAACGCCGC-AAAAGTTCGAT
* * *
55512 ATCTATAACGGCATTTTCGGAATAAACGCCGCAAAAG
1 ATCTATAGCGGCATTTTTGGAACAAACGCCGCAAAAG
55549 GGCTCATGAT
Statistics
Matches: 163, Mismatches: 32, Indels: 19
0.76 0.15 0.09
Matches are distributed among these distances:
39 11 0.07
40 16 0.10
41 8 0.05
42 50 0.31
43 78 0.48
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.26
Consensus pattern (43 bp):
ATCTATAGCGGCATTTTTGGAACAAACGCCGCAAAAGTTCGAT
Found at i:63796 original size:21 final size:22
Alignment explanation
Indices: 63767--63817 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 22
63757 TAACCCGACC
*
63767 CGTTTACCCGTTT-ACCG-GACT
1 CGTTGACCC-TTTGACCGTGACT
63788 CGTTGACCCTTTGACCGTTGACT
1 CGTTGACCCTTTGACCG-TGACT
63811 -GTTGACC
1 CGTTGACC
63818 GGCGTTGACC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 3 0.12
21 12 0.46
22 7 0.27
23 4 0.15
ACGTcount: A:0.14, C:0.31, G:0.22, T:0.33
Consensus pattern (22 bp):
CGTTGACCCTTTGACCGTGACT
Found at i:66287 original size:24 final size:24
Alignment explanation
Indices: 66260--66378 Score: 186
Period size: 24 Copynumber: 5.0 Consensus size: 24
66250 TTCGATTTGA
66260 ATTCTGATCTGATACTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
66284 ATTCTGATCTGATA-TCTGACATGG
1 ATTCTGATCTGATACT-TGACATGG
*
66308 ATTCTGATCTGATACTTGACTTGG
1 ATTCTGATCTGATACTTGACATGG
*
66332 ATTCTGATCTGATACTTGACCTGG
1 ATTCTGATCTGATACTTGACATGG
* *
66356 ATTTTGATATGATACTTGACATG
1 ATTCTGATCTGATACTTGACATG
66379 ATTTATGTGT
Statistics
Matches: 88, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
23 1 0.01
24 86 0.98
25 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.39
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:68530 original size:13 final size:13
Alignment explanation
Indices: 68514--68543 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
68504 TATTTACCTG
*
68514 ACCCGACCCGTTT
1 ACCCAACCCGTTT
68527 ACCCAACCCGTTT
1 ACCCAACCCGTTT
68540 ACCC
1 ACCC
68544 TTTGACCGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.20, C:0.50, G:0.10, T:0.20
Consensus pattern (13 bp):
ACCCAACCCGTTT
Found at i:71034 original size:24 final size:24
Alignment explanation
Indices: 71007--71122 Score: 162
Period size: 24 Copynumber: 4.8 Consensus size: 24
70997 TTCGATTTGA
*
71007 ATTCTGATCTGATGCTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
71031 ATTCTGATCTGATA-TCTGACATGG
1 ATTCTGATCTGATACT-TGACATGG
*
71055 ATTCTGATCTGATACTTGACTTGG
1 ATTCTGATCTGATACTTGACATGG
**
71079 ATTCTGATCTGATACTTGACCCGG
1 ATTCTGATCTGATACTTGACATGG
* *
71103 ATTTTGATATGATACTTGAC
1 ATTCTGATCTGATACTTGAC
71123 CTGATTTATG
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
23 1 0.01
24 82 0.98
25 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.39
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:79025 original size:41 final size:41
Alignment explanation
Indices: 78894--79225 Score: 240
Period size: 41 Copynumber: 8.1 Consensus size: 41
78884 TTGTGTTTAC
** *
78894 AAACGCCACTAAAGTACAAGTCTATAGCGGTGTACGTATAT
1 AAACGCCACTAAAGTACAAGTCTATAGCGGTGTTTGTATAA
* * * *
78935 AAACGCCACTAAAGTACAAGTGTATAGTGGCGTTTGTATAT
1 AAACGCCACTAAAGTACAAGTCTATAGCGGTGTTTGTATAA
* * * *
78976 AAACGCCACTAAAGTACCAGTCTATAGCGGTTTTTATAGAA
1 AAACGCCACTAAAGTACAAGTCTATAGCGGTGTTTGTATAA
* * * * * *
79017 AAATGCCACTAAAGTACGAGTCTTTAGTGGCGTTTGTAAACA
1 AAACGCCACTAAAGTACAAGTCTATAGCGGTGTTTGTATA-A
* * * *
79059 CAAATGCCACTAAAATACGAGTCTATAGCGGCGTTTGTATAA
1 -AAACGCCACTAAAGTACAAGTCTATAGCGGTGTTTGTATAA
* ** * **
79101 AAACGACACTAAAGTATTACTCTATTA-CGGCATTTGT-TGAA
1 AAACGCCACTAAAGTACAAGTCTA-TAGCGGTGTTTGTAT-AA
* * * * *
79142 AAACGCCACT-ATGGATGAA-TCTATTGCGGCGTTTGTATAA
1 AAACGCCACTAAAGTA-CAAGTCTATAGCGGTGTTTGTATAA
* * * * * * *
79182 AAACGCCGCTAAAGTACTACTCTATCGCAGTATTTTTATAA
1 AAACGCCACTAAAGTACAAGTCTATAGCGGTGTTTGTATAA
79223 AAA
1 AAA
79226 AAACACCGCT
Statistics
Matches: 233, Mismatches: 49, Indels: 18
0.78 0.16 0.06
Matches are distributed among these distances:
39 1 0.00
40 29 0.12
41 163 0.70
42 4 0.02
43 36 0.15
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.28
Consensus pattern (41 bp):
AAACGCCACTAAAGTACAAGTCTATAGCGGTGTTTGTATAA
Found at i:79031 original size:82 final size:83
Alignment explanation
Indices: 78892--79116 Score: 272
Period size: 82 Copynumber: 2.7 Consensus size: 83
78882 GTTTGTGTTT
** * *
78892 ACAAACGCCACTAAAGTACAAGTCTATAGCGGTGTACGTATATAAACGCCACTAAAGTACAAGTG
1 ACAAACGCCACTAAAGTACAAGTCTATAGCGGTGTTTGTATAAAAACGCCACTAAAGTACAAGTC
*
78957 TATAGTGGCGTTTGT-AT
66 TATAGTGGCGTTTGTAAC
* * * * * * *
78974 ATAAACGCCACTAAAGTACCAGTCTATAGCGGTTTTTATAGAAAAATGCCACTAAAGTACGAGTC
1 ACAAACGCCACTAAAGTACAAGTCTATAGCGGTGTTTGTATAAAAACGCCACTAAAGTACAAGTC
*
79039 TTTAGTGGCGTTTGTAAAC
66 TATAGTGGCGTTTGT-AAC
* * * * *
79058 ACAAATGCCACTAAAATACGAGTCTATAGCGGCGTTTGTATAAAAACGACACTAAAGTA
1 ACAAACGCCACTAAAGTACAAGTCTATAGCGGTGTTTGTATAAAAACGCCACTAAAGTA
79117 TTACTCTATT
Statistics
Matches: 118, Mismatches: 23, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
82 68 0.58
84 50 0.42
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (83 bp):
ACAAACGCCACTAAAGTACAAGTCTATAGCGGTGTTTGTATAAAAACGCCACTAAAGTACAAGTC
TATAGTGGCGTTTGTAAC
Found at i:80082 original size:17 final size:17
Alignment explanation
Indices: 80060--80174 Score: 212
Period size: 17 Copynumber: 6.8 Consensus size: 17
80050 CAGGGACAAT
80060 AGTAGACATCATGGTAC
1 AGTAGACATCATGGTAC
80077 AGTAGACATCATGGTAC
1 AGTAGACATCATGGTAC
*
80094 AATAGACATCATGGTAC
1 AGTAGACATCATGGTAC
80111 AGTAGACATCATGGTAC
1 AGTAGACATCATGGTAC
*
80128 AATAGACATCATGGTAC
1 AGTAGACATCATGGTAC
80145 AGTAGACATCATGGTAC
1 AGTAGACATCATGGTAC
80162 AGTAGACATCATG
1 AGTAGACATCATG
80175 AGTTTAGAGT
Statistics
Matches: 94, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 94 1.00
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.23
Consensus pattern (17 bp):
AGTAGACATCATGGTAC
Found at i:82149 original size:37 final size:37
Alignment explanation
Indices: 82099--82173 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
82089 AAGTAGCTTG
82099 TAACACCCAAGTTTGAGTCCGATCCAAATATGAAAGA
1 TAACACCCAAGTTTGAGTCCGATCCAAATATGAAAGA
* *
82136 TAACACTCAAGTTTGAGTCCTATCCAAATATGAAAGA
1 TAACACCCAAGTTTGAGTCCGATCCAAATATGAAAGA
82173 T
1 T
82174 CTAAGTGTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.25
Consensus pattern (37 bp):
TAACACCCAAGTTTGAGTCCGATCCAAATATGAAAGA
Found at i:83169 original size:44 final size:44
Alignment explanation
Indices: 83106--83194 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
83096 AGACTAGTTT
83106 ACGTTTCATTGCATGATCCATTAACAATGATTATTATATAACAA
1 ACGTTTCATTGCATGATCCATTAACAATGATTATTATATAACAA
83150 ACGTTTCATTGCATGATCCATTAACAATGATTATTATATAACAA
1 ACGTTTCATTGCATGATCCATTAACAATGATTATTATATAACAA
83194 A
1 A
83195 GCATTAAGCA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.36
Consensus pattern (44 bp):
ACGTTTCATTGCATGATCCATTAACAATGATTATTATATAACAA
Found at i:84859 original size:13 final size:13
Alignment explanation
Indices: 84841--84867 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
84831 GCTTTCTTTT
84841 AATATTTTATTAA
1 AATATTTTATTAA
84854 AATATTTTATTAA
1 AATATTTTATTAA
84867 A
1 A
84868 TTTCAAAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AATATTTTATTAA
Found at i:85549 original size:27 final size:27
Alignment explanation
Indices: 85511--85570 Score: 120
Period size: 27 Copynumber: 2.2 Consensus size: 27
85501 GGATTCTTCA
85511 ACCAAAACACCCACCACTCCAAACATC
1 ACCAAAACACCCACCACTCCAAACATC
85538 ACCAAAACACCCACCACTCCAAACATC
1 ACCAAAACACCCACCACTCCAAACATC
85565 ACCAAA
1 ACCAAA
85571 GCATAGCTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.47, C:0.47, G:0.00, T:0.07
Consensus pattern (27 bp):
ACCAAAACACCCACCACTCCAAACATC
Found at i:88742 original size:17 final size:17
Alignment explanation
Indices: 88720--88752 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
88710 CAGTAATGTG
88720 TAATGATTTTAATGCCA
1 TAATGATTTTAATGCCA
88737 TAATGATTTTAATGCC
1 TAATGATTTTAATGCC
88753 GTATGGCAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (17 bp):
TAATGATTTTAATGCCA
Found at i:89584 original size:111 final size:111
Alignment explanation
Indices: 89390--89722 Score: 578
Period size: 111 Copynumber: 3.0 Consensus size: 111
89380 ATTACAAAAA
* * * *
89390 TTAATTCCTACTCTAAAAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAATTTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
89455 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
*
89501 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAAGTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
*
89566 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGTTAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
*
89612 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
*
89677 AATTAAAAC-TCTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
66 AATTAAAACGT-TAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
89723 ATGATTTCCA
Statistics
Matches: 211, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
110 1 0.00
111 210 1.00
ACGTcount: A:0.44, C:0.12, G:0.08, T:0.35
Consensus pattern (111 bp):
TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
Found at i:90054 original size:50 final size:50
Alignment explanation
Indices: 90000--90125 Score: 173
Period size: 50 Copynumber: 2.5 Consensus size: 50
89990 AGATACCCAG
*
90000 GTATAGCGCGGATCAGGGGGCGCGCTATACCCACGTGGCGCCAGATCACC
1 GTATAGCGCGGATCAGGGGGCGCGCTATACCCACGTGGCGCCAAATCACC
* * *
90050 GTATATCGCGGGA-CAGAGGGCGCGCTATACCCACGTGGCGCCAAATCAGC
1 GTATAGCGC-GGATCAGGGGGCGCGCTATACCCACGTGGCGCCAAATCACC
* * *
90100 ATATAGCGCAGTTCAGGGGGCGCGCT
1 GTATAGCGCGGATCAGGGGGCGCGCT
90126 TTACTGCTAC
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
49 1 0.02
50 61 0.94
51 3 0.05
ACGTcount: A:0.21, C:0.29, G:0.34, T:0.15
Consensus pattern (50 bp):
GTATAGCGCGGATCAGGGGGCGCGCTATACCCACGTGGCGCCAAATCACC
Found at i:92444 original size:25 final size:25
Alignment explanation
Indices: 92416--92463 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
92406 AGGAGTAACT
92416 CCCACCAAATATAATACGAGTGACA
1 CCCACCAAATATAATACGAGTGACA
92441 CCCACCAAATATAATACGAGTGA
1 CCCACCAAATATAATACGAGTGA
92464 AACAAATATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.44, C:0.27, G:0.12, T:0.17
Consensus pattern (25 bp):
CCCACCAAATATAATACGAGTGACA
Found at i:93915 original size:23 final size:23
Alignment explanation
Indices: 93897--93957 Score: 104
Period size: 23 Copynumber: 2.7 Consensus size: 23
93887 CTCGTATAAA
*
93897 TGCACTGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
*
93920 TGCACCGAAGTGCCGCGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
93943 TGCACCGAAGTGCCA
1 TGCACCGAAGTGCCA
93958 TATAAGATGT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.28, C:0.26, G:0.28, T:0.18
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:94970 original size:19 final size:20
Alignment explanation
Indices: 94933--94970 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
94923 TCTTTTATAT
94933 TCATATGATTTATTATCATA
1 TCATATGATTTATTATCATA
*
94953 TCATATGGTTTA-TATCAT
1 TCATATGATTTATTATCAT
94971 CATAACATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.32, C:0.11, G:0.08, T:0.50
Consensus pattern (20 bp):
TCATATGATTTATTATCATA
Found at i:94979 original size:22 final size:20
Alignment explanation
Indices: 94934--94979 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
94924 CTTTTATATT
*
94934 CATATGATTTATTATCATAT
1 CATATGATTTATTATCATAA
*
94954 CATATGGTTTATATCATCATAA
1 CATATGATTTAT-T-ATCATAA
94976 CATA
1 CATA
94980 GCATATATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 11 0.50
21 1 0.05
22 10 0.45
ACGTcount: A:0.37, C:0.13, G:0.07, T:0.43
Consensus pattern (20 bp):
CATATGATTTATTATCATAA
Found at i:95379 original size:20 final size:20
Alignment explanation
Indices: 95344--95381 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
95334 TTCCCATTAA
*
95344 AGTGCATCGGTACATTCTAC
1 AGTGCATCGATACATTCTAC
*
95364 AGTGCATCGATGCATTCT
1 AGTGCATCGATACATTCT
95382 TTAACATATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.32
Consensus pattern (20 bp):
AGTGCATCGATACATTCTAC
Found at i:99082 original size:17 final size:17
Alignment explanation
Indices: 99040--99084 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
99030 TAATTATTAT
*
99040 TAAAATTATAAAAAAAATT
1 TAAAATTAT--AAAAAATA
99059 TAAAATTATAAAAAATA
1 TAAAATTATAAAAAATA
*
99076 TATAATTAT
1 TAAAATTAT
99085 TTTAAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 15 0.62
19 9 0.38
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TAAAATTATAAAAAATA
Found at i:99113 original size:30 final size:30
Alignment explanation
Indices: 99057--99134 Score: 88
Period size: 30 Copynumber: 2.7 Consensus size: 30
99047 ATAAAAAAAA
* *
99057 TTTAAAATTATAAAAA-A-TATATAATTAT
1 TTTAAAATAATAAAAATATTACATAATTAT
99085 TTTAAAATAATAAAAATATTACATAATTAT
1 TTTAAAATAATAAAAATATTACATAATTAT
* * * *
99115 TCTATAGTATTAAAAATATT
1 TTTAAAATAATAAAAATATT
99135 TAAAATTTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
28 15 0.36
29 1 0.02
30 26 0.62
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (30 bp):
TTTAAAATAATAAAAATATTACATAATTAT
Found at i:99648 original size:11 final size:10
Alignment explanation
Indices: 99628--99661 Score: 52
Period size: 11 Copynumber: 3.4 Consensus size: 10
99618 ACATCGTTTG
99628 AAAATTATTA
1 AAAATTATTA
99638 AAAATTTATTA
1 AAAA-TTATTA
99649 AAAA-TATTA
1 AAAATTATTA
99658 AAAA
1 AAAA
99662 AGTATTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.39
10 4 0.17
11 10 0.43
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
AAAATTATTA
Found at i:99667 original size:20 final size:21
Alignment explanation
Indices: 99628--99673 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
99618 ACATCGTTTG
* **
99628 AAAATTATTAAAAATTTA-TT
1 AAAAATATTAAAAAAGTATTT
99648 AAAAATATTAAAAAAGTATTT
1 AAAAATATTAAAAAAGTATTT
99669 AAAAA
1 AAAAA
99674 AGATTTAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (21 bp):
AAAAATATTAAAAAAGTATTT
Found at i:99968 original size:5 final size:5
Alignment explanation
Indices: 99958--100011 Score: 60
Period size: 5 Copynumber: 11.4 Consensus size: 5
99948 ATCATATATA
* *
99958 TGTTT TGTTT TGTTT TGTTT TGTTT AGTTT AGTTT T-TTT T-TTT T-TTT
1 TGTTT TGTTT TGTTT TGTTT TGTTT TGTTT TGTTT TGTTT TGTTT TGTTT
*
100005 TTTTT TG
1 TGTTT TG
100012 CATCTTCTGC
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
4 12 0.27
5 33 0.73
ACGTcount: A:0.04, C:0.00, G:0.15, T:0.81
Consensus pattern (5 bp):
TGTTT
Found at i:104418 original size:32 final size:32
Alignment explanation
Indices: 104348--104466 Score: 170
Period size: 31 Copynumber: 3.8 Consensus size: 32
104338 AGTCGAGGGT
*
104348 TTACCTATGTCCTTGGGGACATATGGACA-GA
1 TTACCTATGTCCTTCGGGACATATGGACAGGA
** *
104379 TTACCTATGTCCTTTAGGACATATAGACAGGA
1 TTACCTATGTCCTTCGGGACATATGGACAGGA
104411 TTACCTATGTCCTTCGGGACATATGGACAGG-
1 TTACCTATGTCCTTCGGGACATATGGACAGGA
* *
104442 TTACCTATGTTCTTCGGAACATATG
1 TTACCTATGTCCTTCGGGACATATG
104467 AATAGGTCAT
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
31 49 0.62
32 30 0.38
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (32 bp):
TTACCTATGTCCTTCGGGACATATGGACAGGA
Found at i:105395 original size:22 final size:23
Alignment explanation
Indices: 105341--105402 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
105331 CAGCTCGTAT
105341 AAATGCACCGAAGTGCCGCATAG
1 AAATGCACCGAAGTGCCGCATAG
* *
105364 AATTGCACCGTAGTGCCGCATA-
1 AAATGCACCGAAGTGCCGCATAG
105386 AAATGCACCGAAGTGCC
1 AAATGCACCGAAGTGCC
105403 ATATAAGGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
22 15 0.43
23 20 0.57
ACGTcount: A:0.32, C:0.27, G:0.24, T:0.16
Consensus pattern (23 bp):
AAATGCACCGAAGTGCCGCATAG
Found at i:107019 original size:24 final size:20
Alignment explanation
Indices: 106962--107024 Score: 63
Period size: 20 Copynumber: 2.9 Consensus size: 20
106952 TTTCCCTTGA
*
106962 AGTGCATCGATGCATTCTAC
1 AGTGCATCGATGCATCCTAC
*
106982 AGTGTATCGATGCATCCCTTAAC
1 AGTGCATCGATGCAT-CC-T-AC
107005 ATGTGCATCGATGCACTCCT
1 A-GTGCATCGATGCA-TCCT
107025 TATACATCGA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
20 14 0.40
21 1 0.03
22 1 0.03
23 4 0.11
24 14 0.40
25 1 0.03
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (20 bp):
AGTGCATCGATGCATCCTAC
Found at i:107025 original size:24 final size:23
Alignment explanation
Indices: 106963--107031 Score: 72
Period size: 24 Copynumber: 3.0 Consensus size: 23
106953 TTCCCTTGAA
*
106963 GTGCATCGATGCATTC-T-ACA-
1 GTGCATCGATGCATCCTTAACAT
*
106983 GTGTATCGATGCATCCCTTAACAT
1 GTGCATCGATGCAT-CCTTAACAT
107007 GTGCATCGATGCACTCCTTATACAT
1 GTGCATCGATGCA-TCCTTA-ACAT
107032 CGATGCATTA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
20 13 0.32
21 1 0.03
22 1 0.03
23 3 0.08
24 17 0.43
25 5 0.12
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (23 bp):
GTGCATCGATGCATCCTTAACAT
Found at i:108638 original size:24 final size:24
Alignment explanation
Indices: 108603--108707 Score: 81
Period size: 24 Copynumber: 4.4 Consensus size: 24
108593 AAGTTGAGGG
* *
108603 TTCTATGCGGTCCTTTGGGACAAA
1 TTCTATGTGGTCCTTCGGGACAAA
* * *
108627 TTCTATGTGGTCATTAGGAACAAA
1 TTCTATGTGGTCCTTCGGGACAAA
* * *
108651 TTCTACGAGGTCCTTCAGGA-AAA
1 TTCTATGTGGTCCTTCGGGACAAA
* *
108674 ATCTACGTGG-CACTTCGGTG-CAAA
1 TTCTATGTGGTC-CTTCGG-GACAAA
108698 TTCTATGTGG
1 TTCTATGTGG
108708 CAGTGGTGAC
Statistics
Matches: 63, Mismatches: 15, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
22 1 0.02
23 16 0.25
24 46 0.73
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (24 bp):
TTCTATGTGGTCCTTCGGGACAAA
Found at i:110174 original size:73 final size:73
Alignment explanation
Indices: 110096--110254 Score: 176
Period size: 73 Copynumber: 2.2 Consensus size: 73
110086 GATCAATGTC
* * * * * *
110096 TAAAAGTATCGATCATCATCGAAAAAGTATGGATATTTTGAGTTTTGATATT-TTTATCAACGTT
1 TAAAAGTATCGATCATCATCGAAAAAGTATCGATATCTTAACTTTCGATATTATCT-TCAACGTT
*
110160 TTCAATTTT
65 TTCAATATT
* * * * * *
110169 TAAAAGTATCCATCATTATCGCATAAGTATCGATATCTTAACTTTCGATCTTATCTTCAACTTTT
1 TAAAAGTATCGATCATCATCGAAAAAGTATCGATATCTTAACTTTCGATATTATCTTCAACGTTT
*
110234 TCGATATT
66 TCAATATT
110242 TAAAAGTATCGAT
1 TAAAAGTATCGAT
110255 ACTATTATAT
Statistics
Matches: 70, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
73 68 0.97
74 2 0.03
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (73 bp):
TAAAAGTATCGATCATCATCGAAAAAGTATCGATATCTTAACTTTCGATATTATCTTCAACGTTT
TCAATATT
Found at i:110410 original size:20 final size:21
Alignment explanation
Indices: 110372--110410 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
110362 ATTTTTAAAA
110372 GTATCGATCATTATCACTTGT
1 GTATCGATCATTATCACTTGT
*
110393 GTATCGAT-ATTCTCACTT
1 GTATCGATCATTATCACTT
110411 TCAATATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.23, C:0.21, G:0.13, T:0.44
Consensus pattern (21 bp):
GTATCGATCATTATCACTTGT
Found at i:111062 original size:28 final size:29
Alignment explanation
Indices: 111019--111074 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 29
111009 TATTCATTTT
111019 TTAAAAATAAATAAAAATGCAATAAAAAA
1 TTAAAAATAAATAAAAATGCAATAAAAAA
* *
111048 TTAAAAATGAA-AAAAATTCAATAAAAA
1 TTAAAAATAAATAAAAATGCAATAAAAA
111075 TATAATGTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 15 0.60
29 10 0.40
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.21
Consensus pattern (29 bp):
TTAAAAATAAATAAAAATGCAATAAAAAA
Found at i:111183 original size:29 final size:30
Alignment explanation
Indices: 111145--111207 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 30
111135 TTAAAAATAT
* *
111145 AAAATAAATATTACATT-TTAA-TTTTATTA
1 AAAATAAATA-AACATTATTAACTGTTATTA
*
111174 AAAATGAATAAACATTATTAACTGTTATTA
1 AAAATAAATAAACATTATTAACTGTTATTA
111204 AAAA
1 AAAA
111208 ATAATAATCA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 5 0.17
29 13 0.45
30 11 0.38
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (30 bp):
AAAATAAATAAACATTATTAACTGTTATTA
Found at i:112117 original size:21 final size:20
Alignment explanation
Indices: 112066--112119 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
112056 TTTAGCTTTA
112066 TATTATATTTTTACTGAATTT
1 TATT-TATTTTTACTGAATTT
** * *
112087 TATTCGTTTTTATTGTATTTT
1 TATTTATTTTTACTG-AATTT
112108 TATTTATTTTTA
1 TATTTATTTTTA
112120 AAAAAATAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
20 8 0.31
21 18 0.69
ACGTcount: A:0.22, C:0.04, G:0.06, T:0.69
Consensus pattern (20 bp):
TATTTATTTTTACTGAATTT
Found at i:116247 original size:42 final size:44
Alignment explanation
Indices: 116199--116285 Score: 115
Period size: 42 Copynumber: 2.0 Consensus size: 44
116189 TTTTATATAG
*
116199 TGTTTAAAATTTAAATTTTAACATTATAAA-T-AATAAATAAAA
1 TGTTTAAAATTTAAAATTTAACATTATAAATTAAATAAATAAAA
* * * *
116241 TGTTTAAGATTTAAAATTTGATATTATAAATTAAATCAATAAAA
1 TGTTTAAAATTTAAAATTTAACATTATAAATTAAATAAATAAAA
116285 T
1 T
116286 TAAAAATTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
42 26 0.68
43 1 0.03
44 11 0.29
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.41
Consensus pattern (44 bp):
TGTTTAAAATTTAAAATTTAACATTATAAATTAAATAAATAAAA
Found at i:121414 original size:23 final size:23
Alignment explanation
Indices: 121379--121437 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 23
121369 ATCAAGCACA
*
121379 ATAATATATTAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
*
121402 ATAATGTAATAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
*
121425 ATAATAAAATAGG
1 ATAATATAATAGG
121438 CATTTAACCG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.41, C:0.07, G:0.19, T:0.34
Consensus pattern (23 bp):
ATAATATAATAGGTAGCGCTTAT
Found at i:123476 original size:22 final size:24
Alignment explanation
Indices: 123448--123506 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
123438 AACCTGAATT
123448 TATAATAAAAT-TA-ATCATTTTA
1 TATAATAAAATATACATCATTTTA
*
123470 TATAAT-AACTATACCATCATTTTA
1 TATAATAAAATATA-CATCATTTTA
*
123494 TATAAAAAAATAT
1 TATAATAAAATAT
123507 TCTTCAACTC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 3 0.10
22 8 0.27
24 14 0.47
25 5 0.17
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (24 bp):
TATAATAAAATATACATCATTTTA
Found at i:125358 original size:20 final size:20
Alignment explanation
Indices: 125312--125358 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
125302 ACCGGTAGCG
125312 CTTTACCGGTTTTGTCATTT
1 CTTTACCGGTTTTGTCATTT
**
125332 CGATACCGGTTTTGTCATATT
1 CTTTACCGGTTTTGTCAT-TT
125353 -TTTACC
1 CTTTACC
125359 TATTATATTG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.15, C:0.21, G:0.15, T:0.49
Consensus pattern (20 bp):
CTTTACCGGTTTTGTCATTT
Found at i:125604 original size:183 final size:181
Alignment explanation
Indices: 125288--125936 Score: 845
Period size: 183 Copynumber: 3.6 Consensus size: 181
125278 TAAAGTACCT
* * * *
125288 ACACTTTCAACATAACCGGTAGCGCTTTACCGGTTTTGTCATTTCGATACCGGTTTTGTCATATT
1 ACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTATCATTTCGAGACCGGTTTTGTCATATT
* * * * * * *
125353 TTTACCTATTATATTGTTATAGATCGATACATTTTCATAAAGTATCGACACTTTTTAGGTGTTAT
66 TTTACCTGTTATATTGCTATGGATCGATACATTTTTATAAAGTATCGACACTTTATAGGCGCTAT
* *
125418 AACTTCTTCTCTTTTAAATTATGAAAGTGTCGATACTTATATTAATTTATCAA
131 AACTTCTTCTCTTTTAAATTA-AAAAGTGTCGATACTTATATTAATTTATC-G
** * **
125471 ACACTTTCAATATATCCGGTAGCTTTTTACCGGTTTTATCATTTTGAGACATGTTTTGTCATATT
1 ACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTATCATTTCGAGACCGGTTTTGTCATATT
* *
125536 CTTACCTGTTATATTGCTATGGATAGATAC-TTTTGTATAAAGTATCGACACTTTATAGGCGCTA
66 TTTACCTGTTATATTGCTATGGATCGATACATTTT-TATAAAGTATCGACACTTTATAGGCGCTA
**
125600 TAACTTCTTCTCTTTTAAATTCAAAAAGTGTCGATACTTATATTAACGTATCG
130 TAACTTCTTCTCTTTTAAATT-AAAAAGTGTCGATACTTATATTAATTTATCG
* * *
125653 ACACTTTCAATATATCCGGTAGCTCTTTACCGGTTTTATCATTTCGTGACCGGTTTTGTCATACT
1 ACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTATCATTTCGAGACCGGTTTTGTCATATT
* * *
125718 TATACTTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATAGGCGCTAT
66 TTTACCTGTTATATTGCTATGGATCGATACATTTTTATAAAGTATCGACACTTTATAGGCGCTAT
* * *
125783 TACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTAT-TTAAATCTAATCG
131 AACTTCTTCTCTTTTAAATT-AAAAAGTGTCGATACTTATATT-AAT-TTATCG
* * * * * * * *
125836 ATACTTTCGATATATCCAGTAGCGGTTTACCGGTTTTATCATAAT-GAAACCGATTTTATCATAT
1 ACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTATCAT-TTCGAGACCGGTTTTGTCATAT
*
125900 TTTTACCTGTTATATTGCTATGGAGCGATACATTTTT
65 TTTTACCTGTTATATTGCTATGGATCGATACATTTTT
125937 CATTTGTATC
Statistics
Matches: 407, Mismatches: 53, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
181 2 0.00
182 158 0.39
183 245 0.60
184 2 0.00
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.43
Consensus pattern (181 bp):
ACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTATCATTTCGAGACCGGTTTTGTCATATT
TTTACCTGTTATATTGCTATGGATCGATACATTTTTATAAAGTATCGACACTTTATAGGCGCTAT
AACTTCTTCTCTTTTAAATTAAAAAGTGTCGATACTTATATTAATTTATCG
Found at i:126279 original size:3 final size:3
Alignment explanation
Indices: 126271--126505 Score: 77
Period size: 3 Copynumber: 74.7 Consensus size: 3
126261 TATAATTAAA
* *
126271 AAT AAT AAT AAG AAT AAT ACAT AAT AAT AAT AA- AA- AAT AAAT ATGT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT -AAT A-AT
* * * * * * *
126317 AAT AAT -AT GAT GATT AAT -AT ATAT AGT AAC AACA AAT ATAT ACT AAC
1 AAT AAT AAT AAT -AAT AAT AAT A-AT AAT AAT AA-T AAT A-AT AAT AAT
* * * *
126364 AGAT AAT ATAT AA- ATT AAT AAAT ATT AAT AAAT GAT ATAC AAT AAT
1 A-AT AAT A-AT AAT AAT AAT -AAT AAT AAT -AAT AAT A-AT AAT AAT
* * * * *
126410 ATAT AAT AAA AAT AAT ACT ATT AAAT GAT AAT AAT AAT AAT ATAT GAT
1 A-AT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT A-AT AAT
* * * *
126458 GAT AAT AGAT TAT AAT AAT AAT AAT AAGT AAG AAT AA- AAT AAA AAT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT
126504 AA
1 AA
126506 ATTTAAATCA
Statistics
Matches: 171, Mismatches: 39, Indels: 44
0.67 0.15 0.17
Matches are distributed among these distances:
2 11 0.06
3 118 0.69
4 42 0.25
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:126310 original size:16 final size:16
Alignment explanation
Indices: 126262--126310 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 16
126252 CAATACCCAT
*
126262 ATAATTAAAAATAATA
1 ATAATAAAAAATAATA
*
126278 ATAAGAATAATACATAATA
1 ATAATAA-AA-A-ATAATA
126297 ATAATAAAAAATAA
1 ATAATAAAAAATAA
126311 ATATGTAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
16 9 0.33
17 3 0.11
18 3 0.11
19 12 0.44
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (16 bp):
ATAATAAAAAATAATA
Found at i:126374 original size:19 final size:18
Alignment explanation
Indices: 126331--126375 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
126321 ATATGATGAT
*
126331 TAATATATATAGTAACAA
1 TAATATATATACTAACAA
*
126349 CAA-ATATATACTAACAGA
1 TAATATATATACTAACA-A
126367 TAATATATA
1 TAATATATA
126376 AATTAATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 12 0.55
18 5 0.23
19 5 0.23
ACGTcount: A:0.56, C:0.09, G:0.04, T:0.31
Consensus pattern (18 bp):
TAATATATATACTAACAA
Found at i:126435 original size:39 final size:41
Alignment explanation
Indices: 126360--126454 Score: 106
Period size: 39 Copynumber: 2.3 Consensus size: 41
126350 AAATATATAC
** *
126360 TAACAGATAATATATAAATTAATAAATATTAATAAATGAT-A
1 TAACA-ATAATATATAAAAAAATAAATACTAATAAATGATAA
*
126401 T-ACAATAATATATAATAAAAAT-AATACTATTAAATGATAA
1 TAACAATAATATATAA-AAAAATAAATACTAATAAATGATAA
*
126441 TAATAATAATATAT
1 TAACAATAATATAT
126455 GATGATAATA
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
39 25 0.54
40 9 0.20
41 12 0.26
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (41 bp):
TAACAATAATATATAAAAAAATAAATACTAATAAATGATAA
Found at i:126442 original size:19 final size:18
Alignment explanation
Indices: 126420--126483 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 18
126410 ATATAATAAA
126420 AATAATACTATTAAATGAT
1 AATAATA-TATTAAATGAT
* *
126439 AATAATAATAATATATGAT
1 AATAAT-ATATTAAATGAT
* * *
126458 GATAATAGATTATAATAAT
1 AATAATATATTA-AATGAT
126477 AATAATA
1 AATAATA
126484 AGTAAGAATA
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
18 4 0.11
19 30 0.86
20 1 0.03
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.36
Consensus pattern (18 bp):
AATAATATATTAAATGAT
Found at i:126464 original size:16 final size:16
Alignment explanation
Indices: 126260--126483 Score: 89
Period size: 16 Copynumber: 14.1 Consensus size: 16
126250 CCCAATACCC
*
126260 ATATAATTAAAAATAAT
1 ATATAA-TAATAATAAT
*
126277 A-ATAAGAATAATACAT
1 ATATAATAATAATA-AT
*
126293 A-ATAATAATAA-AAA
1 ATATAATAATAATAAT
*
126307 ATA-AATATGTAATAAT
1 ATATAATA-ATAATAAT
*
126323 ATGATGAT--TAAT-AT
1 AT-ATAATAATAATAAT
* * *
126337 ATATAGTAACAACAAAT
1 ATATAATAATAA-TAAT
* *
126354 ATATACTAACAGATAAT
1 ATATAATAATA-ATAAT
*
126371 ATATAA-ATTAATAA-
1 ATATAATAATAATAAT
*
126385 ATAT--TAATAAATGAT
1 ATATAATAAT-AATAAT
*
126400 ATACAATAATATATAAT
1 ATATAATAATA-ATAAT
*
126417 A-AAAATAATACTATTAA-
1 ATATAATAATA--A-TAAT
126434 ATGATAATAATAATAAT
1 AT-ATAATAATAATAAT
* *
126451 ATATGATGATAATAGAT
1 ATATAATAATAATA-AT
126468 -TATAATAATAATAAT
1 ATATAATAATAATAAT
126483 A
1 A
126484 AGTAAGAATA
Statistics
Matches: 157, Mismatches: 26, Indels: 49
0.68 0.11 0.21
Matches are distributed among these distances:
13 5 0.03
14 18 0.11
15 26 0.17
16 55 0.35
17 39 0.25
18 6 0.04
19 8 0.05
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (16 bp):
ATATAATAATAATAAT
Found at i:126728 original size:51 final size:51
Alignment explanation
Indices: 126624--126735 Score: 136
Period size: 51 Copynumber: 2.2 Consensus size: 51
126614 ATCCTTTGCA
* * ** **
126624 GTAAAGCGCGCCCCCTGCACCGCGCTATATGTTGATTTGGCGCCACGTGGG
1 GTAAAGCGCGCCCCCTGAACCGCGCTATATGCTGACATGGAACCACGTGGG
*
126675 GTAAGGCGCGCCCCCTGAACCGCGCTATATGCTGACATGGAACACACGT-GG
1 GTAAAGCGCGCCCCCTGAACCGCGCTATATGCTGACATGGAAC-CACGTGGG
*
126726 GTATAGCGCG
1 GTAAAGCGCG
126736 GTCCCTGGAG
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
51 46 0.90
52 5 0.10
ACGTcount: A:0.20, C:0.30, G:0.31, T:0.19
Consensus pattern (51 bp):
GTAAAGCGCGCCCCCTGAACCGCGCTATATGCTGACATGGAACCACGTGGG
Found at i:130515 original size:35 final size:34
Alignment explanation
Indices: 130430--130516 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
130420 AAAATAATTT
*
130430 TAAATACAACAAACTTACAATAAGTATTAAATGG
1 TAAATACAACAAAATTACAATAAGTATTAAATGG
* *
130464 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--G-TATTAAATGG
130502 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
130517 ACTGAAATAC
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.53
36 1 0.02
37 4 0.09
38 11 0.24
ACGTcount: A:0.54, C:0.10, G:0.08, T:0.28
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGTATTAAATGG
Done.