Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005586.1 Hibiscus syriacus cultivar Beakdansim tig00012969_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: 67210
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.33
Found at i:860 original size:15 final size:15
Alignment explanation
Indices: 840--871 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
830 ATTAATACCT
840 TTTTGCATACATACA
1 TTTTGCATACATACA
*
855 TTTTGCATACATTCA
1 TTTTGCATACATACA
870 TT
1 TT
872 ATTCATTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATACA
Found at i:4675 original size:22 final size:23
Alignment explanation
Indices: 4630--4675 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
4620 TTCTTACATT
*
4630 TTTACATTTATTTATTTCATAAA
1 TTTACATTTATTTATTTCAGAAA
* *
4653 TTTAC-TTTATTTCTTTCGGAAA
1 TTTACATTTATTTATTTCAGAAA
4675 T
1 T
4676 ATGTCCGACT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.28, C:0.11, G:0.04, T:0.57
Consensus pattern (23 bp):
TTTACATTTATTTATTTCAGAAA
Found at i:8179 original size:12 final size:12
Alignment explanation
Indices: 8162--8187 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8152 AGAAATAAGG
8162 AAAAAAAAAGAA
1 AAAAAAAAAGAA
8174 AAAAAAAAAGAA
1 AAAAAAAAAGAA
8186 AA
1 AA
8188 TAAAGGGGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAGAA
Found at i:8557 original size:17 final size:16
Alignment explanation
Indices: 8511--8563 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
8501 CAATTCTATC
*
8511 TATTTCAAGTTCAATT
1 TATTTCAAATTCAATT
* *
8527 TATTTGAGATTCAATT
1 TATTTCAAATTCAATT
8543 TATTTCAAAATTCAATT
1 TATTTC-AAATTCAATT
8560 TATT
1 TATT
8564 CTTCTATGAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
16 18 0.58
17 13 0.42
ACGTcount: A:0.34, C:0.09, G:0.06, T:0.51
Consensus pattern (16 bp):
TATTTCAAATTCAATT
Found at i:9526 original size:93 final size:93
Alignment explanation
Indices: 9168--9504 Score: 527
Period size: 93 Copynumber: 3.6 Consensus size: 93
9158 AACAAGTGCG
*
9168 TGTGCTCATAGCATCTTCTGGAAGTG-T-TTTGTGTTATCTGATCTGGTTTGGTATGAACACCAA
1 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACACCAA
* *
9231 AAACCAATCATTGAATTTGAAAGATGAG
66 AAACCAATCATTGAATTTGGAAGATGAA
*
9259 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCCGGTTTGGTATGAACACCAA
1 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACACCAA
9324 AAACCAATCATTGAATTTGGAAGATGAA
66 AAACCAATCATTGAATTTGGAAGATGAA
* * * *
9352 TGTGCTCATAGCATCTTTTGGAAGTGTTCTTTGATTTATCTAATCTGGTTTGGTATGAACCCCAA
1 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACACCAA
*
9417 AAACCAATTATTGAATTTGGAAGATGAA
66 AAACCAATCATTGAATTTGGAAGATGAA
* * * *
9445 TGTGCTCATAGCATCTTTTGGAAGTGTTTTTTTGAGTTAT-TGATCTGGTTCGGTAGGAAC
1 TGTGCTCATAGCATCTTCTGGAAGTG-TTCTTTGAGTTATCTGATCTGGTTTGGTATGAAC
9505 CATAGAACCA
Statistics
Matches: 228, Mismatches: 15, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
91 26 0.11
92 1 0.00
93 190 0.83
94 11 0.05
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (93 bp):
TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACACCAA
AAACCAATCATTGAATTTGGAAGATGAA
Found at i:10542 original size:113 final size:113
Alignment explanation
Indices: 10366--11121 Score: 761
Period size: 113 Copynumber: 6.7 Consensus size: 113
10356 TGCCAGGTAG
10366 AGTTCATAATGAGAAGAACTCGTCATCTGAAGAA-GAAG-A-AA-TTCATAATGAGAAGAATTTG
1 AGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTG
* * * *
10427 TTCAACTTTTTGCTCAAATCCATCATTCGATGGATAAGTTTTTCCAGAGAA
63 TTCAACCTTTTGCTTAAATCCATCATTTGATGGATAAGCTTTTCCAGAGAA
*
10478 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * * * * *
10543 AACCTTTTGTTTGAATTCATCATTTGATGGATCAGTTTTTCTAGAGAA
66 AACCTTTTGCTTAAATCCATCATTTGATGGATAAGCTTTTCCAGAGAA
* *
10591 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAATAAGAAATTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * * * * * *
10656 AACCTTTTGTTTGAATTCATAATTTGATGGATCAA-CATTGCCAG-GTAT
66 AACCTTTTGCTTAAATCCATCATTTGATGGAT-AAGCTTTTCCAGAG-AA
* *
10704 AGTTCATAAAGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * * * *
10769 AACCTTTTGTTTGAATTCATCATTTGATGGATTAA-CATTGCCATGTAG--
66 AACCTTTTGCTTAAATCCATCATTTGATGGA-TAAGCTTTTCCA-G-AGAA
* **
10817 AGTTTATAATGAGAA-CTCATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
1 AGTTCATAATGAGAAGAAC-TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
* * * * *
10881 C-ACTTTTTGCTCAAATCCATCACTTGATGGATCAGTTTTTCCAGAG-A
65 CAACCTTTTGCTTAAATCCATCATTTGATGGATAAGCTTTTCCAGAGAA
* ** *
10928 AGTTCATAATGAGAAGAACTCATCTGAAGAA-G-A-AA-AAGTTCACAATGAGAAGAGCTTATTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * * * * *
10989 AACCTTTTGCTTAATTCTATCACAGAAGCAGATAGATTAGCATAAACCTTTCCAGAGAA
66 AACCTTTTGCTTAA----ATC-C---ATCA-TTTGA-T-GGATAAGCTTTTCCAGAGAA
* * * ** *
11048 AGTTCATAATGAGAAGAACTCATCTGAAAAAGAAAGAAGAAGTTTATAATGAGAAGAGCTTATTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
11113 AACCTTTTG
66 AACCTTTTG
11122 AATGACTCTA
Statistics
Matches: 555, Mismatches: 58, Indels: 50
0.84 0.09 0.08
Matches are distributed among these distances:
107 22 0.04
108 13 0.02
109 13 0.02
110 8 0.01
111 30 0.05
112 55 0.10
113 323 0.58
114 3 0.01
116 4 0.01
117 3 0.01
118 1 0.00
119 13 0.02
120 31 0.06
122 1 0.00
123 2 0.00
124 33 0.06
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (113 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
AACCTTTTGCTTAAATCCATCATTTGATGGATAAGCTTTTCCAGAGAA
Found at i:10710 original size:226 final size:225
Alignment explanation
Indices: 10345--11010 Score: 840
Period size: 226 Copynumber: 3.0 Consensus size: 225
10335 TTCAACCTTT
* *
10345 TGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAA-G--AAGAAA
1 TGGATCAACATTGCCATGTAGAGTTCATAATGAGAAGAA--CATCATCTGAAGAAGGAAAAGAAA
*
10407 TTCATAATGAGAAGAATTTGTTCAACTTTTTGCTCAAATCCATCATTCGATGGAT-AAGTTTTTC
64 TTCATAATGAGAAGAATTTGTTCAACTTTTTGCTCAAATCCATCATTTGATGGATCAA-TTTTTC
*
10471 CAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAA
128 CAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAA
10536 TTTGTTCAACCTTTTGTTTGAATTCATCATTTGA
192 TTTGTTCAACCTTTTGTTTGAATTCATCATTTGA
*** * *
10570 TGGATCAGTTTTTCTA-G-AGAAAGTTCATAATGAGAAGAAC-TCATCTGAAGAAGGAATAAGAA
1 TGGATCAACATTGCCATGTAG--AGTTCATAATGAGAAGAACATCATCTGAAGAAGGAA-AAGAA
* * ** * * ** *
10632 ATTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATAATTTGATGGATCAACATTGC
63 ATTCATAATGAGAAGAATTTGTTCAACTTTTTGCTCAAATCCATCATTTGATGGATCAATTTTTC
* *
10697 CAG-GTATAGTTCATAAAGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGA
128 CAGAG-A-AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
10761 ATTTGTTCAACCTTTTGTTTGAATTCATCATTTGA
191 ATTTGTTCAACCTTTTGTTTGAATTCATCATTTGA
* * ** *
10796 TGGATTAACATTGCCATGTAGAGTTTATAATGAGAA-CTCATCATCTGAAGAAGGAAGAAGAAGT
1 TGGATCAACATTGCCATGTAGAGTTCATAATGAGAAGAACATCATCTGAAGAAGGAA-AAGAAAT
* *
10860 TCATAATGAGAAGAATTTGTTC-ACTTTTTGCTCAAATCCATCACTTGATGGATCAGTTTTTCCA
65 TCATAATGAGAAGAATTTGTTCAACTTTTTGCTCAAATCCATCATTTGATGGATCAATTTTTCCA
* **
10924 GAGAAGTTCATAATGAGAAGAACTCATCTGAAGAA-G-A-AA-AAGTTCACAATGAGAAGAGCTT
130 GAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
* *
10985 ATTCAACCTTTTGCTT-AATTCTATCA
195 GTTCAACCTTTTGTTTGAATTC-ATCA
11011 CAGAAGCAGA
Statistics
Matches: 380, Mismatches: 48, Indels: 31
0.83 0.10 0.07
Matches are distributed among these distances:
219 5 0.01
220 36 0.09
221 2 0.01
222 13 0.03
223 5 0.01
224 31 0.08
225 65 0.17
226 218 0.57
227 3 0.01
228 2 0.01
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.31
Consensus pattern (225 bp):
TGGATCAACATTGCCATGTAGAGTTCATAATGAGAAGAACATCATCTGAAGAAGGAAAAGAAATT
CATAATGAGAAGAATTTGTTCAACTTTTTGCTCAAATCCATCATTTGATGGATCAATTTTTCCAG
AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTG
TTCAACCTTTTGTTTGAATTCATCATTTGA
Found at i:11209 original size:124 final size:124
Alignment explanation
Indices: 10922--11209 Score: 360
Period size: 124 Copynumber: 2.4 Consensus size: 124
10912 TCAGTTTTTC
10922 CAGAGAAGTTCATAATGAGAAGAACTCATCTGAAG--A-AG-A-AAAAGTTCACAATGAGAAGAG
1 CAGA-AAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAGAAGAAAAGTTCACAATGAGAAGAG
** * * * *
10982 CTTATTCAACCTTTTGCTTAATTCTATCACAGAAGCAGATAGATTAGCATAAACCTTTCCAG
65 CTTATTCAACCTTTTGAATAACTCTATCACAGAAGCAAATAGATCAACATAAACC--TCCAG
* *
11044 -AGAAAGTTCATAATGAGAAGAACTCATCTGAA-AAAGA-AAGAAGAAGTTTATAATGAGAAGAG
1 CAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAGAAGAA-AAGTTCACAATGAGAAGAG
* * * * *
11106 CTTATTCAACCTTTTGAATGACTCTATCACAGAAGGAAATAGGTCAACATCATCC-CCAG
65 CTTATTCAACCTTTTGAATAACTCTATCACAGAAGCAAATAGATCAACATAAACCTCCAG
11165 CAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAGAAGAA
1 CAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAGAAGAA
11210 TTTATTCAAC
Statistics
Matches: 144, Mismatches: 13, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
120 29 0.20
121 8 0.06
122 34 0.24
123 7 0.05
124 66 0.46
ACGTcount: A:0.43, C:0.16, G:0.18, T:0.23
Consensus pattern (124 bp):
CAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAGAAGAAAAGTTCACAATGAGAAGAGC
TTATTCAACCTTTTGAATAACTCTATCACAGAAGCAAATAGATCAACATAAACCTCCAG
Found at i:11355 original size:3 final size:3
Alignment explanation
Indices: 11349--11423 Score: 98
Period size: 3 Copynumber: 25.0 Consensus size: 3
11339 TTACCAATTT
* * * *
11349 TTA TTA TTA TTA CTA TAA TTA TTA TTA TTA TAA TTA TTA TTA TTA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
11397 TTA TTA -TA TATA TTA TTA TTA TTA TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA
11424 AAAAAATAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
2 2 0.03
3 57 0.92
4 3 0.05
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:11371 original size:15 final size:15
Alignment explanation
Indices: 11351--11421 Score: 112
Period size: 15 Copynumber: 4.9 Consensus size: 15
11341 ACCAATTTTT
*
11351 ATTATTATTACTATA
1 ATTATTATTATTATA
11366 ATTATTATTATTATA
1 ATTATTATTATTATA
11381 ATTATTATTATTATA
1 ATTATTATTATTATA
11396 ATTATTA-TA-TAT-
1 ATTATTATTATTATA
11408 ATTATTATTATTAT
1 ATTATTATTATTAT
11422 TAAAAAAATA
Statistics
Matches: 53, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
12 7 0.13
13 5 0.09
14 5 0.09
15 36 0.68
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.59
Consensus pattern (15 bp):
ATTATTATTATTATA
Found at i:12735 original size:28 final size:28
Alignment explanation
Indices: 12687--12748 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
12677 TAGTCACTAA
* *
12687 TTTTAAATATTTTCATTTA-TTTTATTG
1 TTTTAAATATTATAATTTATTTTTATTG
12714 CTTTTAAATA-TATAATTGTATTTTTATTG
1 -TTTTAAATATTATAATT-TATTTTTATTG
12743 TTTTAA
1 TTTTAA
12749 TTTTATTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 5 0.17
28 17 0.57
29 8 0.27
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (28 bp):
TTTTAAATATTATAATTTATTTTTATTG
Found at i:12932 original size:17 final size:18
Alignment explanation
Indices: 12910--12944 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
12900 CTGGTATTTT
12910 AAAA-TTAAATATTATAA
1 AAAATTTAAATATTATAA
*
12927 AAAATTTAATTATTATAA
1 AAAATTTAAATATTATAA
12945 TATATATCGA
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AAAATTTAAATATTATAA
Found at i:13019 original size:16 final size:16
Alignment explanation
Indices: 12997--13044 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
12987 ATTTTCTGAT
12997 ATTTTTAAATAATATA
1 ATTTTTAAATAATATA
* *
13013 TTTTTTATATAATTATA
1 ATTTTTAAATAA-TATA
*
13030 ATTTTGAAATAATAT
1 ATTTTTAAATAATAT
13045 GATTATAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
16 13 0.50
17 13 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (16 bp):
ATTTTTAAATAATATA
Found at i:13711 original size:16 final size:15
Alignment explanation
Indices: 13690--13743 Score: 54
Period size: 16 Copynumber: 3.5 Consensus size: 15
13680 AATGTTTATC
13690 ATCATTATTTTTGTTT
1 ATCATTATTTTT-TTT
* ** *
13706 ATCATTAGATCATTAT
1 ATCATTA-TTTTTTTT
13722 ATCATTATTTTTTTT
1 ATCATTATTTTTTTT
13737 ATCATTA
1 ATCATTA
13744 GATCATTAGA
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
15 11 0.38
16 16 0.55
17 2 0.07
ACGTcount: A:0.28, C:0.09, G:0.04, T:0.59
Consensus pattern (15 bp):
ATCATTATTTTTTTT
Found at i:13741 original size:31 final size:32
Alignment explanation
Indices: 13685--13785 Score: 159
Period size: 31 Copynumber: 3.1 Consensus size: 32
13675 ATACTAATGT
13685 TTATCATCATTATTTTTGTTTATCATTAGATCA
1 TTAT-ATCATTATTTTTGTTTATCATTAGATCA
13718 TTATATCATTATTTTT-TTTATCATTAGATCA
1 TTATATCATTATTTTTGTTTATCATTAGATCA
*
13749 TTAGATCATTATTTTTGTTTATCATATTAGATCA
1 TTATATCATTATTTTTGTTTATC--ATTAGATCA
13783 TTA
1 TTA
13786 ATTATATCTT
Statistics
Matches: 64, Mismatches: 1, Indels: 5
0.91 0.01 0.07
Matches are distributed among these distances:
31 30 0.47
32 18 0.28
33 4 0.06
34 12 0.19
ACGTcount: A:0.29, C:0.10, G:0.06, T:0.55
Consensus pattern (32 bp):
TTATATCATTATTTTTGTTTATCATTAGATCA
Found at i:19410 original size:2 final size:2
Alignment explanation
Indices: 19403--19433 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
19393 CGGATGAGGG
19403 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
19434 GTTTTAAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:32533 original size:230 final size:231
Alignment explanation
Indices: 32182--32617 Score: 578
Period size: 230 Copynumber: 1.9 Consensus size: 231
32172 TATCATCATC
* * * *
32182 AACACCAAATTATTTCCAAGATTGACTCAATGTCCTCATAGAGAAGGAATAATGTCATCCTCAAT
1 AACACCAAATTATTTCCAAGATCGACCCAATGTCCTCATAGACAAGGAACAATGTCATCCTCAAT
* * * * * *
32247 TCACCAAAAAGCAGTCAGATCTGTTTAATATGGATGAGCAGTGTTGTCTTCAACACCAAATTATT
66 TCACCAAAAAGCAGTCAAATCTCTTCAATATGGATAAGCAGTGTTATCCTCAACACCAAATTATT
* * * *
32312 TCTAGATTGACCTG-ATGTCCTCAGAT-AGAAGGAACAATGTCATCTTTAATTCACCCAAAAGTG
131 TCCAGATTGACCTGAAT-CCCTCA-ATGAGAAGGAACAATGTCATCTTCAATTCACACAAAAGTG
32375 GCAAGATCTCTTTAATGTGGCTGAGCAGTGTCGTCTTT
194 GCAAGATCTCTTTAATGTGGCTGAGCAGTGTCGTCTTT
*
32413 AACACCAAATTATTTCC-AGATCGACCCAACT-TCCTCA-ATGACAAGGAACAATGTCATCTTCA
1 AACACCAAATTATTTCCAAGATCGACCCAA-TGTCCTCATA-GACAAGGAACAATGTCATCCTCA
* * *
32475 ATTCACCCAAAAGC-GATCAAATCTCTTCAATGTGTATAAGCAGTGTTATCCTCAACACCAAATT
64 ATTCACCAAAAAGCAG-TCAAATCTCTTCAATATGGATAAGCAGTGTTATCCTCAACACCAAATT
* * *
32539 ATTTCCAGATTGACCTGAATCCCTCAATGAGAATGAATAATTTCATCTTCAATTCACACAAAAGT
128 ATTTCCAGATTGACCTGAATCCCTCAATGAGAAGGAACAATGTCATCTTCAATTCACACAAAAGT
* *
32604 GGCCATATCTCTTT
193 GGCAAGATCTCTTT
32618 GTTGTAGATG
Statistics
Matches: 177, Mismatches: 23, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
229 4 0.02
230 153 0.86
231 20 0.11
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (231 bp):
AACACCAAATTATTTCCAAGATCGACCCAATGTCCTCATAGACAAGGAACAATGTCATCCTCAAT
TCACCAAAAAGCAGTCAAATCTCTTCAATATGGATAAGCAGTGTTATCCTCAACACCAAATTATT
TCCAGATTGACCTGAATCCCTCAATGAGAAGGAACAATGTCATCTTCAATTCACACAAAAGTGGC
AAGATCTCTTTAATGTGGCTGAGCAGTGTCGTCTTT
Found at i:32614 original size:115 final size:116
Alignment explanation
Indices: 32180--32617 Score: 494
Period size: 115 Copynumber: 3.8 Consensus size: 116
32170 ATTATCATCA
* *
32180 TCAACACCAAATTATTTCCAAGATTGA-CTCAATGTCCTC-ATAGAGAAGGAATAATGTCATCCT
1 TCAACACCAAATTATTTCC-AGATTGACCTCAATGTCCTCAAT-GAGAAGGAACAATGTCATCTT
* * * * *
32243 CAATTCACCAAAAAGCAGTCAGATCTGTTTAATATGGATGAGCAGTGTTGTCT
64 CAATTCACCCAAAAGCGGCCAGATCTCTTTAATGTGGATGAGCAGTGTTGTCT
* * *
32296 TCAACACCAAATTATTTCTAGATTGACCT-GATGTCCTCAGAT-AGAAGGAACAATGTCATCTTT
1 TCAACACCAAATTATTTCCAGATTGACCTCAATGTCCTCA-ATGAGAAGGAACAATGTCATCTTC
* * * *
32359 AATTCACCCAAAAGTGGCAAGATCTCTTTAATGTGGCTGAGCAGTGTCGTCT
65 AATTCACCCAAAAGCGGCCAGATCTCTTTAATGTGGATGAGCAGTGTTGTCT
* * *
32411 TTAACACCAAATTATTTCCAGATCGACC-CAACT-TCCTCAATGACAAGGAACAATGTCATCTTC
1 TCAACACCAAATTATTTCCAGATTGACCTCAA-TGTCCTCAATGAGAAGGAACAATGTCATCTTC
** * * * * * *
32474 AATTCACCCAAAAGCGATCAAATCTCTTCAATGTGTATAAGCAGTGTTATCC
65 AATTCACCCAAAAGCGGCCAGATCTCTTTAATGTGGATGAGCAGTGTTGTCT
* * * * *
32526 TCAACACCAAATTATTTCCAGATTGACCTGAAT-CCCTCAATGAGAATGAATAATTTCATCTTCA
1 TCAACACCAAATTATTTCCAGATTGACCTCAATGTCCTCAATGAGAAGGAACAATGTCATCTTCA
* * *
32590 ATTCACACAAAAGTGGCCATATCTCTTT
66 ATTCACCCAAAAGCGGCCAGATCTCTTT
32618 GTTGTAGATG
Statistics
Matches: 269, Mismatches: 46, Indels: 15
0.82 0.14 0.05
Matches are distributed among these distances:
114 2 0.01
115 242 0.90
116 23 0.09
117 2 0.01
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.30
Consensus pattern (116 bp):
TCAACACCAAATTATTTCCAGATTGACCTCAATGTCCTCAATGAGAAGGAACAATGTCATCTTCA
ATTCACCCAAAAGCGGCCAGATCTCTTTAATGTGGATGAGCAGTGTTGTCT
Found at i:37521 original size:17 final size:17
Alignment explanation
Indices: 37501--37557 Score: 87
Period size: 17 Copynumber: 3.4 Consensus size: 17
37491 TTTATTAATT
37501 AAACTAGTTCATTCATC
1 AAACTAGTTCATTCATC
*
37518 AAACTTGTTCATTCATC
1 AAACTAGTTCATTCATC
* *
37535 AAACTAGTTCATTTATT
1 AAACTAGTTCATTCATC
37552 AAACTA
1 AAACTA
37558 ATTCTTAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 36 1.00
ACGTcount: A:0.37, C:0.19, G:0.05, T:0.39
Consensus pattern (17 bp):
AAACTAGTTCATTCATC
Found at i:41550 original size:21 final size:22
Alignment explanation
Indices: 41482--41560 Score: 85
Period size: 23 Copynumber: 3.7 Consensus size: 22
41472 TCGAAATAGA
* *
41482 GTGCATGGATGCACTACT--TG
1 GTGCATGGATGCACTAGTGGAG
*
41502 GTGCATAGATGCACTAGTGGCAG
1 GTGCATGGATGCACTAGTGG-AG
41525 GTGCATGGATGCACT-GTAGG-G
1 GTGCATGGATGCACTAGT-GGAG
41546 GTGCATGGATGCACT
1 GTGCATGGATGCACT
41561 TTGACACCCT
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
20 16 0.31
21 16 0.31
22 2 0.04
23 17 0.33
ACGTcount: A:0.22, C:0.18, G:0.35, T:0.25
Consensus pattern (22 bp):
GTGCATGGATGCACTAGTGGAG
Found at i:42934 original size:23 final size:22
Alignment explanation
Indices: 42882--42934 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 22
42872 AACTTTTAAA
42882 TCTAAATTTTCTTTTTGAAAAC
1 TCTAAATTTTCTTTTTGAAAAC
* * *
42904 TTTTAATTTT-TAGTTTTGAAAGC
1 TCTAAATTTTCT--TTTTGAAAAC
42927 TCTAAATT
1 TCTAAATT
42935 CTTTCTCAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
21 1 0.04
22 8 0.33
23 15 0.62
ACGTcount: A:0.30, C:0.09, G:0.08, T:0.53
Consensus pattern (22 bp):
TCTAAATTTTCTTTTTGAAAAC
Found at i:42965 original size:20 final size:19
Alignment explanation
Indices: 42940--42984 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
42930 AAATTCTTTC
*
42940 TCAAAATTTCATTTTGGCTT
1 TCAAAATCT-ATTTTGGCTT
* *
42960 TCAAAATCTATTTTTGTTT
1 TCAAAATCTATTTTGGCTT
42979 TCAAAA
1 TCAAAA
42985 GAAAATCGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.31, C:0.13, G:0.07, T:0.49
Consensus pattern (19 bp):
TCAAAATCTATTTTGGCTT
Found at i:43871 original size:34 final size:33
Alignment explanation
Indices: 43810--43880 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 33
43800 ACCTTACAAC
* *
43810 TCCCTAGTTTTTCACGGGTTAAACTAGAACCTT
1 TCCCTAGTTTTACACGGGTTAAACTAGAACATT
*
43843 TCCCTAGCTTTTACACGGGCTT-AGCTAGAACATT
1 TCCCTAG-TTTTACACGGG-TTAAACTAGAACATT
43877 TCCC
1 TCCC
43881 CTTTACAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
33 7 0.21
34 24 0.73
35 2 0.06
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.34
Consensus pattern (33 bp):
TCCCTAGTTTTACACGGGTTAAACTAGAACATT
Found at i:57836 original size:17 final size:18
Alignment explanation
Indices: 57814--57848 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
57804 ATAAATAAAT
*
57814 GACAAACATTT-TTTTAA
1 GACAAAAATTTATTTTAA
57831 GACAAAAATTTATTTTAA
1 GACAAAAATTTATTTTAA
57849 TATAGTAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.40
Consensus pattern (18 bp):
GACAAAAATTTATTTTAA
Found at i:57979 original size:31 final size:30
Alignment explanation
Indices: 57928--57991 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 30
57918 GATATTAATA
* *
57928 AATAAAAATATATTAAAATTTTAATAATTTT
1 AATAAAAATAAATTAAAATTTT-ATAATATT
* *
57959 AATAAAACTAAATTATAATTTTATAATATT
1 AATAAAAATAAATTAAAATTTTATAATATT
57989 AAT
1 AAT
57992 TATTTAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 10 0.34
31 19 0.66
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (30 bp):
AATAAAAATAAATTAAAATTTTATAATATT
Found at i:59407 original size:14 final size:13
Alignment explanation
Indices: 59388--59457 Score: 74
Period size: 12 Copynumber: 5.4 Consensus size: 13
59378 TTGGGCTTTG
*
59388 TAATATTTAATAAA
1 TAATATATAAT-AA
59402 TAATATATAATAA
1 TAATATATAATAA
59415 TAAT-TATAATAA
1 TAATATATAATAA
59427 TAATACTAATAAT-A
1 TAATA-T-ATAATAA
*
59441 TAAT-TTTAATAA
1 TAATATATAATAA
59453 TAATA
1 TAATA
59458 AATTTAAATG
Statistics
Matches: 49, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
11 4 0.08
12 18 0.37
13 6 0.12
14 16 0.33
15 5 0.10
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.41
Consensus pattern (13 bp):
TAATATATAATAA
Found at i:59414 original size:3 final size:3
Alignment explanation
Indices: 59395--59458 Score: 67
Period size: 3 Copynumber: 21.0 Consensus size: 3
59385 TTGTAATATT
* *
59395 TAA TAAA TAA TATA TAA TAA TAA TTA TAA TAA TAA TAC TAA TAA T-A
1 TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
**
59441 TAA TTT TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
59459 ATTTAAATGA
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
2 2 0.04
3 42 0.84
4 6 0.12
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:59443 original size:26 final size:25
Alignment explanation
Indices: 59388--59457 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 25
59378 TTGGGCTTTG
59388 TAAT-ATT-TAATAAATAATATATAA
1 TAATAATTATAAT-AATAATATATAA
59412 TAATAATTATAATAATAATACTAATAA
1 TAATAATTATAATAATAATA-T-ATAA
*
59439 T-ATAATTTTAATAATAATA
1 TAATAATTATAATAATAATA
59458 AATTTAAATG
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
24 4 0.10
25 10 0.24
26 22 0.54
27 5 0.12
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.41
Consensus pattern (25 bp):
TAATAATTATAATAATAATATATAA
Found at i:59759 original size:75 final size:75
Alignment explanation
Indices: 59581--61136 Score: 2039
Period size: 75 Copynumber: 21.4 Consensus size: 75
59571 TGGAAATGTT
* *
59581 GAAACATCA-GCACTGAAGGGCTTACCGATGACCCGAAGGTTTTTGAAAACATCAAAAAGCTCCC
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG--TTTGAAAACATCAAAAAGCTCCC
59645 GAAGGCTTTTTTTTTG
64 GAAGGC----TTTTTG
*
59661 GAAACATCATGCACTGAATGG-CTTACAGATGACCCGAAGGTTTTGAAAATATC-AAAAGCTCCC
1 GAAACATCATGCACTGAA-GGACTTACAGATGACCCGAAGG-TTTGAAAACATCAAAAAGCTCCC
59724 GAAGGCTTTTTG
64 GAAGGCTTTTTG
*
59736 GAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-TTTGAAAACATCAAAAAGCTCCCG
59801 AAGGCTTTTTG
65 AAGGCTTTTTG
* * *
59812 G-AACATCACGCACTGAAGGACTTACAGATGACCCTAAGCTTTTGAAAACATCAAAAAGCT-CCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAG-GTTTGAAAACATCAAAAAGCTCCCG
59875 AAGGCTTTTTG
65 AAGGCTTTTTG
* * *
59886 GAAACATCATGCACTGAAGGACTTACATATGACCCTAAGGCTTG-----A--AAAAAGCTCCCGA
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTGAAAACATCAAAAAGCTCCCGA
59944 AGGCTTTTTTG
66 AGGC-TTTTTG
59955 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-TTTGAAAACATCAAAAAGCTCCCG
60020 AAGGCTTTTTG
65 AAGGCTTTTTG
* * * *
60031 GAAACATCACGCACTGAAGGACTTACAGACGACCCTAAGGCTTTTGAAAACATCAAAAAACTCCC
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG--TTTGAAAACATCAAAAAGCTCCC
60096 GAAGGCTTTTTG
64 GAAGGCTTTTTG
*
60108 GAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTG-----A--AAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-TTTGAAAACATCAAAAAGCTCCCG
60166 AAGGCTTTTTTG
65 AAGGC-TTTTTG
* *
60178 GAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCT
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-TTTGAAAACATCAAAAAGCTCCCG
* *
60243 AAGGTTTTTTTT
65 AAGG-CTTTTTG
*
60255 GAAACATCATGCACTGAAGGACTTACAGATGATCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-TTTGAAAACATCAAAAAGCTCCCG
60320 AAGGCTTTTTG
65 AAGGCTTTTTG
*
60331 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATC-AAAAGCTCCTG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-TTTGAAAACATCAAAAAGCTCCCG
60395 AAGGCTTTTTG
65 AAGGCTTTTTG
* *
60406 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTGGAAACATCAAAAAGCTCCCGA
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTGAAAACATCAAAAAGCTCCCGA
60471 AGGCTTTTTG
66 AGGCTTTTTG
*
60481 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCTG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-TTTGAAAACATCAAAAAGCTCCCG
60546 AAGGCTTTTTG
65 AAGGCTTTTTG
* *
60557 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTGGAAACATCAAAAAGCTCCCGA
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTGAAAACATCAAAAAGCTCCCGA
60622 AGGCTTTTTG
66 AGGCTTTTTG
* * *
60632 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTGGAAACATCAAAAAGCTCTCGA
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTGAAAACATCAAAAAGCTCCCGA
60697 AGGCTTTTTG
66 AGGCTTTTTG
* *
60707 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTGGAAACATCAAAAAGCTCCCGA
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTGAAAACATCAAAAAGCTCCCGA
60772 AGGCTTTTTG
66 AGGCTTTTTG
* *
60782 GAAACATCATGCACTGAAGGACTTACAGATG---TG-A-----G-AAATATCAAAAAGCTCCCGA
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTGAAAACATCAAAAAGCTCCCGA
60837 AGGCTTTTTG
66 AGGCTTTTTG
* * *
60847 GAAACATCATGCACTGAAGGACTTACATATG---TG-A-----G-AAATATCAAAAAGCTCCCGA
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTGAAAACATCAAAAAGCTCCCGA
60902 AGGCTTTTTG
66 AGGCTTTTTG
* *
60912 GAAACATCATGCACTGAAGGACTTACAGATG---TG-A-----G-AAATATCAAAAAGCTCCCGA
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTGAAAACATCAAAAAGCTCCCGA
60967 AGGCTTTTTG
66 AGGCTTTTTG
* * *
60977 GAAACATCATGCACTGAAGGACTTACATATG---TG-A-----G-AAATATCAAAAAGCT-CCGA
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTGAAAACATCAAAAAGCTCCCGA
61031 AGGCTTTTTG
66 AGGCTTTTTG
* *
61041 GAAACATCATGCACTGAAGGACTTACAGATG---TG-A-----G-AAATATCAAAAAGCTCCCGA
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTGAAAACATCAAAAAGCTCCCGA
61096 AGGCTTTTTG
66 AGGCTTTTTG
61106 GAAACATCATGCACTGAAGGACTTACAGATG
1 GAAACATCATGCACTGAAGGACTTACAGATG
61137 TGAGAAATAG
Statistics
Matches: 1392, Mismatches: 55, Indels: 73
0.92 0.04 0.05
Matches are distributed among these distances:
64 63 0.05
65 251 0.18
66 1 0.00
67 8 0.01
68 8 0.01
69 61 0.04
70 51 0.04
71 2 0.00
72 1 0.00
74 30 0.02
75 478 0.34
76 199 0.14
77 174 0.12
79 16 0.01
80 21 0.02
81 26 0.02
82 2 0.00
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (75 bp):
GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTG
Found at i:60551 original size:226 final size:224
Alignment explanation
Indices: 59581--61136 Score: 2092
Period size: 226 Copynumber: 7.1 Consensus size: 224
59571 TGGAAATGTT
* * *
59581 GAAACATCA-GCACTGAAGGGCTTACCGATGACCCGAAGGTTTTTGAAAACATCAAAAAGCTCCC
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-CTTTGAAAACATCAAAAAGCTCCC
*
59645 GAAGGCTTTTTTTTTGGAAACATCATGCACTGAATGG-CTTACAGATGACCCGAAGGTTTTGAAA
65 GAAGGC----TTTTTGGAAACATCATGCACTGAA-GGACTTACAGATGACCCGAAGG-CTTG-AA
*
59709 ATATCAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAA
123 ATATCAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAA
*
59774 GGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTG
188 GGC-TTGGAAACATCAAAAAGCTCCCGAAGGCTTTTTG
* *
59812 G-AACATCACGCACTGAAGGACTTACAGATGACCCTAA-GCTTTTGAAAACATCAAAAAGCT-CC
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGC-TTTGAAAACATCAAAAAGCTCCC
* *
59874 GAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACATATGACCCTAAGGCTTG--A-A--AA
65 GAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTGAAATATCAA
59934 AAGCTCCCGAAGGCTTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTT
130 AAGCTCCCGAAGGC-TTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGC-TT
*
59999 GAAAACATCAAAAAGCTCCCGAAGGCTTTTTG
193 GGAAACATCAAAAAGCTCCCGAAGGCTTTTTG
* * * *
60031 GAAACATCACGCACTGAAGGACTTACAGACGACCCTAAGGCTTTTGAAAACATCAAAAAACTCCC
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGC-TTTGAAAACATCAAAAAGCTCCC
*
60096 GAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTG--A-A--A
65 GAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGC-TTGAAATATCA
* *
60156 AAAGCTCCCGAAGGCTTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTT
129 AAAGCTCCCGAAGGC-TTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-CT
* * * *
60221 TGAAAACATCAAAAAGCTCCCTAAGGTTTTTTTT
192 TGGAAACATCAAAAAGCTCCCGAAGG-CTTTTTG
*
60255 GAAACATCATGCACTGAAGGACTTACAGATGATCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
*
60320 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCA
66 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGC-TTG-AAATATCA
*
60385 AAAGCTCCTGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTG
129 AAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTG
60450 GAAACATCAAAAAGCTCCCGAAGGCTTTTTG
194 GAAACATCAAAAAGCTCCCGAAGGCTTTTTG
*
60481 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCTG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
*
60546 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTGGAAACATCAA
66 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTT-GAAATATC-A
60611 AAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTG
129 AAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTG
*
60676 GAAACATCAAAAAGCTCTCGAAGGCTTTTTG
194 GAAACATCAAAAAGCTCCCGAAGGCTTTTTG
*
60707 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGC-TTGGAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
*
60771 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATG---TG-A-----GAAATATCAAA
66 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTGAAATATC-AA
* *
60827 AAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACATATG---TG-A------G
130 AAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTGG
*
60882 AAATATCAAAAAGCTCCCGAAGGCTTTTTG
195 AAACATCAAAAAGCTCCCGAAGGCTTTTTG
* *
60912 GAAACATCATGCACTGAAGGACTTACAGATG---TG-A------G-AAATATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
* *
60966 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACATATG---TG-A-----GAAATATCAAA
66 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTGAAATATC-AA
*
61022 AAGCT-CCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATG---TG-A------G
130 AAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTGG
*
61076 AAATATCAAAAAGCTCCCGAAGGCTTTTTG
195 AAACATCAAAAAGCTCCCGAAGGCTTTTTG
61106 GAAACATCATGCACTGAAGGACTTACAGATG
1 GAAACATCATGCACTGAAGGACTTACAGATG
61137 TGAGAAATAG
Statistics
Matches: 1262, Mismatches: 45, Indels: 73
0.91 0.03 0.05
Matches are distributed among these distances:
194 109 0.09
195 78 0.06
196 1 0.00
201 1 0.00
202 1 0.00
205 60 0.05
211 1 0.00
212 1 0.00
215 60 0.05
218 16 0.01
219 82 0.06
220 36 0.03
221 24 0.02
222 55 0.04
223 171 0.14
224 47 0.04
225 113 0.09
226 258 0.20
227 26 0.02
228 45 0.04
229 23 0.02
230 28 0.02
231 26 0.02
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (224 bp):
GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTGAAATATCAAA
AGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTGGA
AACATCAAAAAGCTCCCGAAGGCTTTTTG
Found at i:60860 original size:65 final size:65
Alignment explanation
Indices: 60751--61145 Score: 756
Period size: 65 Copynumber: 6.1 Consensus size: 65
60741 CGAAGGCTTG
*
60751 GAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGTGA
1 GAAATATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGTGA
*
60816 GAAATATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACATATGTGA
1 GAAATATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGTGA
60881 GAAATATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGTGA
1 GAAATATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGTGA
*
60946 GAAATATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACATATGTGA
1 GAAATATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGTGA
61011 GAAATATCAAAAAGCT-CCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGTGA
1 GAAATATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGTGA
61075 GAAATATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGTGA
1 GAAATATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGTGA
61140 GAAATA
1 GAAATA
61146 GTTTACTAAG
Statistics
Matches: 324, Mismatches: 5, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
64 63 0.19
65 261 0.81
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.23
Consensus pattern (65 bp):
GAAATATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGTGA
Found at i:61828 original size:21 final size:22
Alignment explanation
Indices: 61802--61855 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
61792 CATAAAGTTT
*
61802 TCATCTTTGAAAAGAG-ATCTG
1 TCATCTTTGAAAAGAGAATCTA
* *
61823 TCATCTTTAAAAAGGGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
61845 TCATCTTTGAA
1 TCATCTTTGAA
61856 GAGTGTAGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 14 0.50
22 14 0.50
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:62299 original size:54 final size:54
Alignment explanation
Indices: 62217--62324 Score: 180
Period size: 54 Copynumber: 2.0 Consensus size: 54
62207 AGAATAACAG
* *
62217 GTTTGTAAAACATTTGACAGTGCATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
1 GTTTGTAAAACATTTGACAATACATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
**
62271 GTTTGTAAAACATTTGACAATACATTCATCCTTTTTTGTGGCTTCTGCTCAGAT
1 GTTTGTAAAACATTTGACAATACATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
62325 ATTCGTAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.41
Consensus pattern (54 bp):
GTTTGTAAAACATTTGACAATACATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
Done.