Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009038.1 Hibiscus syriacus cultivar Beakdansim tig00112445_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: 174032
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:8521 original size:16 final size:16
Alignment explanation
Indices: 8495--8539 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
8485 TTTGAATACA
*
8495 ATTCTATTTATTTCAAG
1 ATTCAATTTATTT-AAG
*
8512 -TTCAATTTATTTGAG
1 ATTCAATTTATTTAAG
8527 ATTCAATTTATTT
1 ATTCAATTTATTT
8540 TTGGAAATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 2 0.08
16 23 0.92
ACGTcount: A:0.29, C:0.09, G:0.07, T:0.56
Consensus pattern (16 bp):
ATTCAATTTATTTAAG
Found at i:9411 original size:82 final size:82
Alignment explanation
Indices: 9264--9663 Score: 764
Period size: 82 Copynumber: 4.9 Consensus size: 82
9254 ATATCCTAGT
* *
9264 CCAAACATTAAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
1 CCAATCATTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
9329 TGATCTGGTTTGGTAAA
66 TGATCTGGTTTGGTAAA
*
9346 CCAATCATTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAGGTGTTCTTTGAGTTATC
1 CCAATCATTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
9411 TGATCTGGTTTGGTAAA
66 TGATCTGGTTTGGTAAA
9428 CCAATCATTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
1 CCAATCATTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
9493 TGATCTGGTTTGGTAAA
66 TGATCTGGTTTGGTAAA
9510 CCAATCATTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
1 CCAATCATTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
9575 TGATCTGGTTTGGTAAA
66 TGATCTGGTTTGGTAAA
*
9592 CCAATCATTGAATTTAGAAGATAAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
1 CCAATCATTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
9657 TGATCTG
66 TGATCTG
9664 ATTCGGTAGG
Statistics
Matches: 313, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 313 1.00
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (82 bp):
CCAATCATTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
TGATCTGGTTTGGTAAA
Found at i:10873 original size:223 final size:221
Alignment explanation
Indices: 10399--11163 Score: 1237
Period size: 223 Copynumber: 3.4 Consensus size: 221
10389 ATTCAAATCT
*
10399 ATCATTTGATGGATTATCTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
1 ATCACTTGATGGATTAT-TTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
* * *
10464 AAGAAGTTCATAATGAGAAGAATTTGTTCAACATTTTATTTGAATTCATCAAATTGATGGATTAG
65 AAGAAGTTCATAATGAGAAGAATTTGTTCAAC-CTTTATCTGAATTCATC-ACTTGATGGATTA-
* *
10529 CTTTT-CCAGAGAAGGTTCATAATGAGAAGAACTCATCATCTGAAGGAGGAAGAAGAAGTTCATA
127 TTTTTGCCAGAGAA-GTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATA
10593 ATGAGAAGAATTTGTTCAACCTTTTATCTGAATTC
188 ATGAGAAGAATTTGTTCAACCTTTT-TCTGAATTC
10628 ATCACTTGATGGATTATTTTTGCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
1 ATCACTTGATGGATTATTTTT-CCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
10693 AAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTATCTGAATTCATCACTTGATGGATTATTT
65 AAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTATCTGAATTCATCACTTGATGGATTATTT
10758 TTGCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAA
130 TTGCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAA
10823 GAATTTGTTCAACCTTTTGTCTGAATTC
195 GAATTTGTTCAACCTTTT-TCTGAATTC
10851 ATCACTTGATGGATTATTTTTGCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
1 ATCACTTGATGGATTATTTTT-CCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
*
10916 AAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATT
65 AAGAAGTTCATAATGAGAAGAATTTGTTCAACC-TTTATCTGAATTCATCACTTGATGGATTATT
10981 TTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAG
129 TTTGCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAG
* *
11046 AAGAATTTGTTCAACCTTTTTGCTCAAATC
193 AAGAATTTGTTCAACCTTTTT-CTGAATTC
* * * *
11076 TATTACTTGATGGGTTATTTTTTCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAA
1 -ATCACTTGATGGATTATTTTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
11141 G-AGAAAGTTCATAATGAGAAGAA
64 GAAG-AAGTTCATAATGAGAAGAA
11164 CTCATCAAAA
Statistics
Matches: 514, Mismatches: 14, Indels: 19
0.94 0.03 0.03
Matches are distributed among these distances:
223 160 0.31
224 42 0.08
225 87 0.17
226 95 0.18
227 20 0.04
228 19 0.04
229 91 0.18
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (221 bp):
ATCACTTGATGGATTATTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
AGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTATCTGAATTCATCACTTGATGGATTATTTT
TGCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAG
AATTTGTTCAACCTTTTTCTGAATTC
Found at i:10927 original size:112 final size:112
Alignment explanation
Indices: 10399--11163 Score: 1254
Period size: 112 Copynumber: 6.8 Consensus size: 112
10389 ATTCAAATCT
*
10399 ATCATTTGATGGATTATCTTTT-CCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
1 ATCACTTGATGGATTAT-TTTTGCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* *
10463 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACATTTTATTTGAATTC
65 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATCTGAATTC
* * *
10511 ATCAAATTGATGGATTAGCTTTT-CCAGAGAAGGTTCATAATGAGAAGAACTCATCATCTGAAGG
1 ATC-ACTTGATGGATTA-TTTTTGCCAGAGAA-GTTCATAATGAGAAGAA--C-TCATCTGAAGA
10575 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATCTGAATTC
60 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATCTGAATTC
10628 ATCACTTGATGGATTATTTTTGCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
1 ATCACTTGATGGATTATTTTTGCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
10693 AAGAAGTTCATAATGAGAAGAATTTGTTCAACC-TTTATCTGAATTC
66 AAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATCTGAATTC
10739 ATCACTTGATGGATTATTTTTGCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
1 ATCACTTGATGGATTATTTTTGCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
*
10804 AAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTC
66 AAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATCTGAATTC
10851 ATCACTTGATGGATTATTTTTGCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
1 ATCACTTGATGGATTATTTTTGCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
*
10916 AAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTC
66 AAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATCTGAATTC
10963 ATCACTTGATGGATTATTTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
1 ATCACTTGATGGATTATTTTTGCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* *
11028 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT-TGCTCAAATC
65 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTAT-CTGAATTC
* * * *
11076 TATTACTTGATGGGTTATTTTT-TCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGA
1 -ATCACTTGATGGATTATTTTTGCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
11140 AG-AGAAAGTTCATAATGAGAAGAA
64 AGAAG-AAGTTCATAATGAGAAGAA
11164 CTCATCAAAA
Statistics
Matches: 626, Mismatches: 15, Indels: 23
0.94 0.02 0.03
Matches are distributed among these distances:
111 111 0.18
112 207 0.33
113 166 0.27
114 36 0.06
115 21 0.03
116 21 0.03
117 64 0.10
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (112 bp):
ATCACTTGATGGATTATTTTTGCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
AAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATCTGAATTC
Found at i:11424 original size:3 final size:3
Alignment explanation
Indices: 11416--11475 Score: 113
Period size: 3 Copynumber: 20.3 Consensus size: 3
11406 TTTTTACTCA
11416 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
11464 TAT TA- TAT TAT T
1 TAT TAT TAT TAT T
11476 TAAAATTACA
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.04
3 54 0.96
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:11959 original size:15 final size:15
Alignment explanation
Indices: 11918--11953 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
11908 GGAGAGAGAA
11918 AAAGAAACAG-AAAAG
1 AAAGAAA-AGAAAAAG
11933 AAAGAAAAGAAAAAG
1 AAAGAAAAGAAAAAG
11948 AAAGAA
1 AAAGAA
11954 TGGAAACTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 2 0.10
15 18 0.90
ACGTcount: A:0.78, C:0.03, G:0.19, T:0.00
Consensus pattern (15 bp):
AAAGAAAAGAAAAAG
Found at i:12828 original size:13 final size:13
Alignment explanation
Indices: 12812--12857 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
12802 ATATAATAAA
12812 TAAATATTTATTT
1 TAAATATTTATTT
*
12825 TAAATAAATTATTT
1 TAAAT-ATTTATTT
12839 T-AATATTTATTT
1 TAAATATTTATTT
*
12851 TTAATAT
1 TAAATAT
12858 CGAAGAAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 8 0.28
13 13 0.45
14 8 0.28
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
TAAATATTTATTT
Found at i:16507 original size:26 final size:26
Alignment explanation
Indices: 16460--16590 Score: 86
Period size: 26 Copynumber: 4.9 Consensus size: 26
16450 TTAATAATTT
* *
16460 TCAAATAAATTTGTGTTTGATTAACGG
1 TCAAATAATTTTG-GTTCGATTAACGG
*
16487 TCAAATAATTTTGGTTCGATTAATGG
1 TCAAATAATTTTGGTTCGATTAACGG
* * * * * ***
16513 TTAAAGAAAAAAATTCGGTT--AATAATTT
1 -T---CAAATAATTTTGGTTCGATTAACGG
16541 TCAAATAAATTTTGGTTCGATTAACGG
1 TCAAAT-AATTTTGGTTCGATTAACGG
*
16568 TCAAATAATTTTGATTCGATTAA
1 TCAAATAATTTTGGTTCGATTAA
16591 TTTTAAAGAA
Statistics
Matches: 78, Mismatches: 19, Indels: 15
0.70 0.17 0.13
Matches are distributed among these distances:
24 3 0.04
25 8 0.10
26 27 0.35
27 24 0.31
28 5 0.06
30 11 0.14
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.40
Consensus pattern (26 bp):
TCAAATAATTTTGGTTCGATTAACGG
Found at i:16578 original size:81 final size:80
Alignment explanation
Indices: 16443--16708 Score: 311
Period size: 81 Copynumber: 3.1 Consensus size: 80
16433 TTATTCGGTT
*
16443 AATTCGGTTAATAATTTTCAAATAAA-TTTGTGTTTGATTAACGGTCAAATAATTTTGGTTCGAT
1 AATTCGGTTAATAATTTTCAAATAAATTTTG-GTTCGATTAACGGTCAAATAATTTTGGTTCGAT
16507 TAATGGTTAAAGAAAAA
65 TAAT-GTTAAAGAAAAA
*
16524 AATTCGGTTAATAATTTTCAAATAAATTTTGGTTCGATTAACGGTCAAATAATTTTGATTCGATT
1 AATTCGGTTAATAATTTTCAAATAAATTTTGGTTCGATTAACGGTCAAATAATTTTGGTTCGATT
*
16589 AATTTTAAAGAAAAA
66 AATGTTAAAGAAAAA
** *
16604 AATTCGGTTAATTTGGTTCGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATA
1 AATTCGGTTAA--TAATT---TTCA-AA---T-AAAT---TTT-GGTTCGATTAACGGTCAAATA
16669 ATTTTGGTTCGATTAATGTTAAAG-AAAA
52 ATTTTGGTTCGATTAATGTTAAAGAAAAA
*
16697 AATTTGGTTAAT
1 AATTCGGTTAAT
16709 TTAGTTCGAT
Statistics
Matches: 161, Mismatches: 9, Indels: 20
0.85 0.05 0.11
Matches are distributed among these distances:
80 22 0.14
81 61 0.38
82 7 0.04
85 3 0.02
86 2 0.01
89 1 0.01
90 4 0.02
91 1 0.01
93 17 0.11
94 43 0.27
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.40
Consensus pattern (80 bp):
AATTCGGTTAATAATTTTCAAATAAATTTTGGTTCGATTAACGGTCAAATAATTTTGGTTCGATT
AATGTTAAAGAAAAA
Found at i:16630 original size:94 final size:93
Alignment explanation
Indices: 16526--16762 Score: 384
Period size: 94 Copynumber: 2.5 Consensus size: 93
16516 AAGAAAAAAA
*
16526 TTCGGTTAATAATTTTCAAATAAATTTTGGTTCGATTAACGGTCAAATAATTTTGATTCGATTAA
1 TTCGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTTGATTCGATTAA
* *
16591 TTTTAAAGAAAAAAATTCGGTTAATTTGG
66 TGTTAAAG-AAAAAATTCGGTTAATTTAG
*
16620 TTCGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTTGGTTCGATTAA
1 TTCGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTTGATTCGATTAA
*
16685 TGTTAAAGAAAAAATTTGGTTAATTTAG
66 TGTTAAAGAAAAAATTCGGTTAATTTAG
* * * *
16713 TTCGATTAATATTTTTAAAATAAATTTCGGTTCGATTAACGGTTAAATAA
1 TTCGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAA
16763 AAAAATATTT
Statistics
Matches: 134, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
93 64 0.48
94 70 0.52
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.41
Consensus pattern (93 bp):
TTCGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTTGATTCGATTAA
TGTTAAAGAAAAAATTCGGTTAATTTAG
Found at i:18961 original size:13 final size:14
Alignment explanation
Indices: 18943--18975 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
18933 TTTTTTAGAT
*
18943 TCGGGTCGAC-GGG
1 TCGGGTCAACTGGG
18956 TCGGGTCAACTGGG
1 TCGGGTCAACTGGG
18970 TCGGGT
1 TCGGGT
18976 AATTTTGCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.09, C:0.21, G:0.48, T:0.21
Consensus pattern (14 bp):
TCGGGTCAACTGGG
Found at i:22253 original size:35 final size:35
Alignment explanation
Indices: 22204--22274 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
22194 GTTAAAACCT
*
22204 ATATTAATATACTAAATTAAAAGCAGGGCTCATAA
1 ATATTAATAAACTAAATTAAAAGCAGGGCTCATAA
* *
22239 ATATTAATAAACTAAATTAGAAGCAGGGCTTATAA
1 ATATTAATAAACTAAATTAAAAGCAGGGCTCATAA
22274 A
1 A
22275 CTTATTTCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.49, C:0.10, G:0.13, T:0.28
Consensus pattern (35 bp):
ATATTAATAAACTAAATTAAAAGCAGGGCTCATAA
Found at i:23710 original size:23 final size:23
Alignment explanation
Indices: 23684--23744 Score: 59
Period size: 23 Copynumber: 2.7 Consensus size: 23
23674 CTCGTATAAC
* *
23684 TGCACCAAAGTGTCACGTAGAAT
1 TGCACCAAAGTGCCACATAGAAT
** *
23707 TGCACCGGAGTGCCGCATAGAAT
1 TGCACCAAAGTGCCACATAGAAT
**
23730 TGCACCGGAGTGCCA
1 TGCACCAAAGTGCCA
23745 TATAATAATG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.28, C:0.26, G:0.28, T:0.18
Consensus pattern (23 bp):
TGCACCAAAGTGCCACATAGAAT
Found at i:25289 original size:21 final size:21
Alignment explanation
Indices: 25247--25328 Score: 137
Period size: 21 Copynumber: 3.9 Consensus size: 21
25237 TTCACTTGAG
*
25247 GGGTATCGATTCCCCATTGAAT
1 GGGTACCGATTCCCC-TTGAAT
25269 GGGTACCGATTCCCCTTGAAT
1 GGGTACCGATTCCCCTTGAAT
*
25290 GGGTATCGATTCCCCTTGAAT
1 GGGTACCGATTCCCCTTGAAT
25311 GGGTACCGATTCCCCTTG
1 GGGTACCGATTCCCCTTG
25329 CCCAGAAATC
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
21 43 0.75
22 14 0.25
ACGTcount: A:0.18, C:0.27, G:0.24, T:0.30
Consensus pattern (21 bp):
GGGTACCGATTCCCCTTGAAT
Found at i:25310 original size:42 final size:43
Alignment explanation
Indices: 25247--25328 Score: 157
Period size: 42 Copynumber: 1.9 Consensus size: 43
25237 TTCACTTGAG
25247 GGGTATCGATTCCCCATTGAATGGGTACCGATTCCCCTTGAAT
1 GGGTATCGATTCCCCATTGAATGGGTACCGATTCCCCTTGAAT
25290 GGGTATCGATTCCCC-TTGAATGGGTACCGATTCCCCTTG
1 GGGTATCGATTCCCCATTGAATGGGTACCGATTCCCCTTG
25329 CCCAGAAATC
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
42 24 0.62
43 15 0.38
ACGTcount: A:0.18, C:0.27, G:0.24, T:0.30
Consensus pattern (43 bp):
GGGTATCGATTCCCCATTGAATGGGTACCGATTCCCCTTGAAT
Found at i:30735 original size:30 final size:30
Alignment explanation
Indices: 30700--30767 Score: 127
Period size: 30 Copynumber: 2.3 Consensus size: 30
30690 TGGGATGATT
*
30700 TTGAAGCTAAATGGGTTAGGGTATTTGTTG
1 TTGAAGCTAAATGGGTTAGGGTATTTATTG
30730 TTGAAGCTAAATGGGTTAGGGTATTTATTG
1 TTGAAGCTAAATGGGTTAGGGTATTTATTG
30760 TTGAAGCT
1 TTGAAGCT
30768 TAAGGACTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.25, C:0.04, G:0.31, T:0.40
Consensus pattern (30 bp):
TTGAAGCTAAATGGGTTAGGGTATTTATTG
Found at i:35124 original size:41 final size:41
Alignment explanation
Indices: 35088--35178 Score: 173
Period size: 41 Copynumber: 2.2 Consensus size: 41
35078 ATTTTATGGT
*
35088 TTTTAATTTATATATGTTATGACTTGTGATATTTTTATACC
1 TTTTAATATATATATGTTATGACTTGTGATATTTTTATACC
35129 TTTTAATATATATATGTTATGACTTGTGATATTTTTATACC
1 TTTTAATATATATATGTTATGACTTGTGATATTTTTATACC
35170 TTTTAATAT
1 TTTTAATAT
35179 TGTAAACTTA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.29, C:0.07, G:0.09, T:0.56
Consensus pattern (41 bp):
TTTTAATATATATATGTTATGACTTGTGATATTTTTATACC
Found at i:47522 original size:78 final size:78
Alignment explanation
Indices: 47392--47552 Score: 205
Period size: 78 Copynumber: 2.1 Consensus size: 78
47382 GTGCGCTTTG
* * * ** * **
47392 ATTCTGGGAAGATTTATGCAACTGTAGAGAAGAATGAAGTGACTGAAGGTATCATCAATGTTCCG
1 ATTCTGAGAAGATTAATGCAACTGTAGAGAAGAAGGAAGACACTGAAGGTATCACCAACATTCCG
47457 TTTAAAAGCTTCA
66 TTTAAAAGCTTCA
* * * *
47470 ATTCTGAGAAGATTAATGCAACTGTAGAGACGAAGGAAGACTCTGAATGTATCACCGACATTCCG
1 ATTCTGAGAAGATTAATGCAACTGTAGAGAAGAAGGAAGACACTGAAGGTATCACCAACATTCCG
*
47535 TTTGAAAGCTTCA
66 TTTAAAAGCTTCA
47548 ATTCT
1 ATTCT
47553 TATTTTATGT
Statistics
Matches: 70, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
78 70 1.00
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.29
Consensus pattern (78 bp):
ATTCTGAGAAGATTAATGCAACTGTAGAGAAGAAGGAAGACACTGAAGGTATCACCAACATTCCG
TTTAAAAGCTTCA
Found at i:49369 original size:20 final size:20
Alignment explanation
Indices: 49344--49382 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
49334 TAAATTAAAT
49344 ATTAGATA-AGATCAGTTTTA
1 ATTAGATAGA-ATCAGTTTTA
49364 ATTAGATAGAATCAGTTTT
1 ATTAGATAGAATCAGTTTT
49383 TATTCTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.38, C:0.05, G:0.15, T:0.41
Consensus pattern (20 bp):
ATTAGATAGAATCAGTTTTA
Found at i:49429 original size:20 final size:21
Alignment explanation
Indices: 49396--49435 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
49386 TCTATTAGTT
49396 ATTAGATAAGATCA-TTTTTA
1 ATTAGATAAGATCAGTTTTTA
49416 ATTAGAT-AGAATCAGTTTTT
1 ATTAGATAAG-ATCAGTTTTT
49436 TATTCTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 2 0.11
20 11 0.61
21 5 0.28
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (21 bp):
ATTAGATAAGATCAGTTTTTA
Found at i:49462 original size:53 final size:52
Alignment explanation
Indices: 49343--49492 Score: 266
Period size: 53 Copynumber: 2.9 Consensus size: 52
49333 CTAAATTAAA
*
49343 TATTAGATAAGATCAGTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
1 TATTAGATAAGATCATTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
49395 TATTAGATAAGATCATTTTTAATTAGATAGAATCAGTTTTTTATTCTATTAGT
1 TATTAGATAAGATCATTTTTAATTAGATAGAATCAG-TTTTTATTCTATTAGT
*
49448 TATTAGATAGGATCATTTTTAATTAGATAGAATCA-TTTTTATTCT
1 TATTAGATAAGATCATTTTTAATTAGATAGAATCAGTTTTTATTCT
49493 GTTGCTAATT
Statistics
Matches: 95, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
51 10 0.11
52 35 0.37
53 50 0.53
ACGTcount: A:0.34, C:0.06, G:0.12, T:0.48
Consensus pattern (52 bp):
TATTAGATAAGATCATTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
Found at i:49474 original size:20 final size:20
Alignment explanation
Indices: 49449--49488 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
49439 TCTATTAGTT
*
49449 ATTAGATAGGATCATTTTTA
1 ATTAGATAGAATCATTTTTA
49469 ATTAGATAGAATCATTTTTA
1 ATTAGATAGAATCATTTTTA
49489 TTCTGTTGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (20 bp):
ATTAGATAGAATCATTTTTA
Found at i:54084 original size:20 final size:20
Alignment explanation
Indices: 54059--54149 Score: 65
Period size: 20 Copynumber: 5.0 Consensus size: 20
54049 TAAATTAAAT
54059 ATTAGATA-AGATCAGTTTTA
1 ATTAGATAGA-ATCAGTTTTA
*
54079 ATTAGATAGAATCAGTTTTT
1 ATTAGATAGAATCAGTTTTA
* *
54099 ATT--CT---ATTAG--TT-
1 ATTAGATAGAATCAGTTTTA
* *
54111 ATTAGATAGGATCATTTTTA
1 ATTAGATAGAATCAGTTTTA
54131 ATTAGATAGAATCAGTTTT
1 ATTAGATAGAATCAGTTTT
54150 TTATTCTATT
Statistics
Matches: 54, Mismatches: 8, Indels: 18
0.68 0.10 0.22
Matches are distributed among these distances:
12 3 0.06
13 2 0.04
14 1 0.02
15 4 0.07
17 3 0.06
18 1 0.02
19 2 0.04
20 37 0.69
21 1 0.02
ACGTcount: A:0.35, C:0.05, G:0.14, T:0.45
Consensus pattern (20 bp):
ATTAGATAGAATCAGTTTTA
Found at i:54174 original size:53 final size:52
Alignment explanation
Indices: 54058--54207 Score: 266
Period size: 53 Copynumber: 2.9 Consensus size: 52
54048 CTAAATTAAA
* *
54058 TATTAGATAAGATCAGTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
54110 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAG-TTTTTATTCTATTAGT
54163 TATTAGATAGGATCATTTTTAATTAGATAGAATCA-TTTTTATTCT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCT
54208 GTTGCTAATT
Statistics
Matches: 95, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
51 10 0.11
52 34 0.36
53 51 0.54
ACGTcount: A:0.33, C:0.06, G:0.13, T:0.48
Consensus pattern (52 bp):
TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
Found at i:54189 original size:20 final size:20
Alignment explanation
Indices: 54164--54203 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
54154 TCTATTAGTT
*
54164 ATTAGATAGGATCATTTTTA
1 ATTAGATAGAATCATTTTTA
54184 ATTAGATAGAATCATTTTTA
1 ATTAGATAGAATCATTTTTA
54204 TTCTGTTGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (20 bp):
ATTAGATAGAATCATTTTTA
Found at i:57800 original size:25 final size:22
Alignment explanation
Indices: 57771--57816 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
57761 ATTTTAACCC
57771 AATCTTAATTCCTAATAAAATAATA
1 AATC-TAA-TCCTAA-AAAATAATA
*
57796 AATCTAATCCTAAAAGATAAT
1 AATCTAATCCTAAAAAATAAT
57817 GCATCATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 7 0.35
23 6 0.30
24 3 0.15
25 4 0.20
ACGTcount: A:0.52, C:0.13, G:0.02, T:0.33
Consensus pattern (22 bp):
AATCTAATCCTAAAAAATAATA
Found at i:61617 original size:9 final size:9
Alignment explanation
Indices: 61605--61648 Score: 70
Period size: 9 Copynumber: 4.8 Consensus size: 9
61595 AAATTTTGGC
61605 TTTTTTTTG
1 TTTTTTTTG
61614 TTTTTTTTG
1 TTTTTTTTG
*
61623 CCTTTTTTTG
1 -TTTTTTTTG
61633 TTTTTTTTG
1 TTTTTTTTG
61642 TTTTTTT
1 TTTTTTT
61649 GAAAAAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
9 24 0.75
10 8 0.25
ACGTcount: A:0.00, C:0.05, G:0.09, T:0.86
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:61620 original size:19 final size:19
Alignment explanation
Indices: 61598--61648 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
61588 TTTTTTGAAA
*
61598 TTTTGGCTTTTTTTTGTTT
1 TTTTTGCTTTTTTTTGTTT
*
61617 TTTTTGCCTTTTTTTGTTT
1 TTTTTGCTTTTTTTTGTTT
61636 TTTTTG-TTTTTTT
1 TTTTTGCTTTTTTT
61649 GAAAAAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 6 0.21
19 23 0.79
ACGTcount: A:0.00, C:0.06, G:0.12, T:0.82
Consensus pattern (19 bp):
TTTTTGCTTTTTTTTGTTT
Found at i:64660 original size:60 final size:60
Alignment explanation
Indices: 64567--64687 Score: 224
Period size: 60 Copynumber: 2.0 Consensus size: 60
64557 TTTTGATATA
64567 TAACTACATAACATAAGCATATCATCAATTGACAATCTAACTGTGAAAGGAACACTTAAG
1 TAACTACATAACATAAGCATATCATCAATTGACAATCTAACTGTGAAAGGAACACTTAAG
* *
64627 TAACTACATAATATAAGCATATCATCAATTGACAATCTAACTGTGAAAGTAACACTTAAG
1 TAACTACATAACATAAGCATATCATCAATTGACAATCTAACTGTGAAAGGAACACTTAAG
64687 T
1 T
64688 GCAGATGAAC
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.45, C:0.17, G:0.11, T:0.27
Consensus pattern (60 bp):
TAACTACATAACATAAGCATATCATCAATTGACAATCTAACTGTGAAAGGAACACTTAAG
Found at i:75007 original size:47 final size:47
Alignment explanation
Indices: 74951--75040 Score: 171
Period size: 47 Copynumber: 1.9 Consensus size: 47
74941 ATCAAATTGA
*
74951 AAGAATATATAAATAATATTGATTATTTGTGTAATTATACCATCCAG
1 AAGAATATATAAATAATATTGACTATTTGTGTAATTATACCATCCAG
74998 AAGAATATATAAATAATATTGACTATTTGTGTAATTATACCAT
1 AAGAATATATAAATAATATTGACTATTTGTGTAATTATACCAT
75041 TTAGGTAAGC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.43, C:0.08, G:0.10, T:0.39
Consensus pattern (47 bp):
AAGAATATATAAATAATATTGACTATTTGTGTAATTATACCATCCAG
Found at i:75303 original size:17 final size:17
Alignment explanation
Indices: 75283--75315 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
75273 ATATTTATTT
*
75283 ATATAAAATATAATATA
1 ATATAAAAAATAATATA
75300 ATATAAAAAATAATAT
1 ATATAAAAAATAATAT
75316 TATGGTAGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
ATATAAAAAATAATATA
Found at i:75481 original size:3 final size:3
Alignment explanation
Indices: 75473--75532 Score: 113
Period size: 3 Copynumber: 20.3 Consensus size: 3
75463 ACTCTTTGTA
75473 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
75520 TAT TAT TAT TAT T
1 TAT TAT TAT TAT T
75533 TGAGTAAATT
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.04
3 54 0.96
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:76495 original size:20 final size:20
Alignment explanation
Indices: 76470--76515 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
76460 ACCGTTGGGC
76470 TTGATATTACTGTAGCAGTA
1 TTGATATTACTGTAGCAGTA
**
76490 TTGATATTGTTGTAGCAGTA
1 TTGATATTACTGTAGCAGTA
*
76510 TCGATA
1 TTGATA
76516 CTCATTTTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.41
Consensus pattern (20 bp):
TTGATATTACTGTAGCAGTA
Found at i:76593 original size:19 final size:20
Alignment explanation
Indices: 76542--76597 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
76532 TGTTTTTTAG
* * *
76542 TATCGGTACTGTTCACACAA
1 TATCAGTACTATTCATACAA
76562 TATCAGTACTATTCATACAA
1 TATCAGTACTATTCATACAA
*
76582 TA-CAGTATTATTCATA
1 TATCAGTACTATTCATA
76598 AAAAAATTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 13 0.41
20 19 0.59
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.36
Consensus pattern (20 bp):
TATCAGTACTATTCATACAA
Found at i:77677 original size:6 final size:6
Alignment explanation
Indices: 77666--77691 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
77656 CCAGAGAGAT
77666 GGTAGA GGTAGA GGTAGA GGTAGA GG
1 GGTAGA GGTAGA GGTAGA GGTAGA GG
77692 GAGGAGATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.54, T:0.15
Consensus pattern (6 bp):
GGTAGA
Found at i:77695 original size:102 final size:102
Alignment explanation
Indices: 77516--77720 Score: 376
Period size: 102 Copynumber: 2.0 Consensus size: 102
77506 AATGACAGGA
*
77516 TAGAGATATGTTCAAACAGACCAATCAGTGGTAGTGTCCCAGAGAGATGGACGAGGTAGAGGTGG
1 TAGAGATATGTTCAAACAGACCAATCAGTGGTAGTGTCCCAGAGAGATGGACGAGGTAGAGGTAG
77581 AGGTAGAAGGAGGAGATATTCAGAGATAGCCTCTTAG
66 AGGTAGAAGGAGGAGATATTCAGAGATAGCCTCTTAG
77618 TAGAGATATGTTCAAACAGACCAATCAGTGGTAGTGTCCCAGAGAGATGGTA-GAGGTAGAGGTA
1 TAGAGATATGTTCAAACAGACCAATCAGTGGTAGTGTCCCAGAGAGATGG-ACGAGGTAGAGGTA
*
77682 GAGGTAGAGGGAGGAGATATTCAGAGATAGCCTCTTAG
65 GAGGTAGAAGGAGGAGATATTCAGAGATAGCCTCTTAG
77720 T
1 T
77721 TTGATATACG
Statistics
Matches: 100, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
102 99 0.99
103 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.33, T:0.21
Consensus pattern (102 bp):
TAGAGATATGTTCAAACAGACCAATCAGTGGTAGTGTCCCAGAGAGATGGACGAGGTAGAGGTAG
AGGTAGAAGGAGGAGATATTCAGAGATAGCCTCTTAG
Found at i:80066 original size:37 final size:38
Alignment explanation
Indices: 80024--80102 Score: 124
Period size: 37 Copynumber: 2.1 Consensus size: 38
80014 AATTTTGATA
* *
80024 TTATACCTAAAAATTAACTAACATAATTTGTACAT-AT
1 TTATACCTAAAAAATAACAAACATAATTTGTACATAAT
*
80061 TTATACCTAAAAAATAACAAATATAATTTGTACATAAT
1 TTATACCTAAAAAATAACAAACATAATTTGTACATAAT
80099 TTAT
1 TTAT
80103 TAATTTAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
37 32 0.84
38 6 0.16
ACGTcount: A:0.48, C:0.11, G:0.03, T:0.38
Consensus pattern (38 bp):
TTATACCTAAAAAATAACAAACATAATTTGTACATAAT
Found at i:80473 original size:23 final size:23
Alignment explanation
Indices: 80426--80475 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
80416 AAGAACATAT
* **
80426 TAGGTAGCGTTTATATAATGTAA
1 TAGGTAGCGCTTATATAATAAAA
80449 TAGGTAGCGCTTATATAATAAAA
1 TAGGTAGCGCTTATATAATAAAA
80472 TAGG
1 TAGG
80476 CATTTAATCG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.06, G:0.22, T:0.34
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATAAAA
Found at i:80911 original size:198 final size:193
Alignment explanation
Indices: 80484--81196 Score: 738
Period size: 198 Copynumber: 3.6 Consensus size: 193
80474 GGCATTTAAT
* * * *
80484 CGGTATATTTATACCGGTAGCATTGCAAATTTACCTATTGCATTATAATTATTGGTTTCGTTGTT
1 CGGTATATTTATACCGGTA-CATTGTAAATTTACCTATTACATTATAATTATTCGTTTCGATGTT
* *
80549 TTTTGGATCGATACAATTTTAAATGTATCGACACTTTATGCTTGCATCTCTTTGGGCATTCCTAA
65 TTTGGGATCGATACAATTTTAAATGTATCGACACTTTATTCTTGCA-CTCTTTGGGCATT-C--A
* * *
80614 TTCATTCTGGAAAAAAATATCGACACAAACTATAAAGGTGTCGATACATTATTTAGACCTATTTT
126 TT-A---TGGAAAAAAGTATCGACACAAA-T-TAAAAGTGTCGATACTTTATTT-GACCTATTTT
80679 CTCATAAAAC
184 CTCATAAAAC
* * *
80689 TGGTATATTTATACCGGGTACATTGTAAATTTACCTATAACATTGTAATT-TTCGTTTCGATGTT
1 CGGTATATTTATACC-GGTACATTGTAAATTTACCTATTACATTATAATTATTCGTTTCGATGTT
* *
80753 TTTGGGATCGATACAATTTTAAATGTATCGACACGTTATTCTTGCACATCGTTGGGCATTCATTA
65 TTTGGGATCGATACAATTTTAAATGTATCGACACTTTATTCTTGCAC-TCTTTGGGCATTCATTA
*
80818 TGGACAAAATGTATCGACACAAATTACACAAGTGTCGATACTTTATTCTGACCTATTTTCTCATA
129 TGGA-AAAAAGTATCGACACAAATTA-A-AAGTGTCGATACTTTATT-TGACCTATTTTCTCATA
80883 AAAC
190 AAAC
* * *
80887 CGGTAAATTTAAACCGGTTACATTGTAAATTGACCTATTACATTATAATTA-TCGGTTTCGATGT
1 CGGTATATTTATACCGG-TACATTGTAAATTTACCTATTACATTATAATTATTC-GTTTCGATGT
* * * * **
80951 TTTTGTGATCGATACAATTTTAAATGTATCGACACTTTATCTTTATGCGTGAACCTATTTGTGTT
64 TTTTGGGATCGATACAATTTTAAATGTATCGACACTTTAT-TCT-TGC----A-CTCTTTGGGCA
*
81016 TTC-TTTTGGAAAAAAGTATCGACACAAACTTAAAAAGTGTCGATACTTTATATTGACCTGA-TT
122 TTCATTATGGAAAAAAGTATCGACACAAA-TT-AAAAGTGTCGATACTTTAT-TTGACCT-ATTT
* * *
81079 TATAAT-TAAC
183 TCTCATAAAAC
* * * ** *
81089 CGGTATATGTATACTGGCTACATTGTTAATTTAAATATTACATTATAATTATTTGTTTCGATGTT
1 CGGTATATTTATACCGG-TACATTGTAAATTTACCTATTACATTATAATTATTCGTTTCGATGTT
* * *
81154 TTTGGGGTCGATAC-TTTTTGAATATGTATCGACAC-ATATTCTT
65 TTTGGGATCGATACAATTTT-AA-ATGTATCGACACTTTATTCTT
81197 ACATATGTAT
Statistics
Matches: 436, Mismatches: 49, Indels: 51
0.81 0.09 0.10
Matches are distributed among these distances:
196 2 0.00
197 8 0.02
198 95 0.22
199 49 0.11
200 4 0.01
201 12 0.03
202 73 0.17
203 61 0.14
204 77 0.18
205 50 0.11
206 5 0.01
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (193 bp):
CGGTATATTTATACCGGTACATTGTAAATTTACCTATTACATTATAATTATTCGTTTCGATGTTT
TTGGGATCGATACAATTTTAAATGTATCGACACTTTATTCTTGCACTCTTTGGGCATTCATTATG
GAAAAAAGTATCGACACAAATTAAAAGTGTCGATACTTTATTTGACCTATTTTCTCATAAAAC
Found at i:84086 original size:178 final size:182
Alignment explanation
Indices: 83771--84499 Score: 698
Period size: 199 Copynumber: 3.8 Consensus size: 182
83761 TAAAATTTAG
* * * ** * *
83771 TCTGGACAAAAATGTATCGAAACTTGATGTATTTGTGTCGATACTTCATGTATACCTGTTTTCTC
1 TCTGGACAAAAA-GTATCGACACTTGTTATATTTGTGTCGATACTTTTTATACACCTGTTTTCTC
* * *
83836 ATAAACCGGTAGATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATAGTTTTC
65 AAAAACCGGTATATTTAGACCGGTTACATTGATAATTTACCTATTACATTATAATTAT-GTTTTC
* *
83901 AATGTTTTTGGGATCGACACTTTT-T-A-G-TA-CACTTGGTTTTGAAATACAT
129 GATGTTTTTGGGATCGACACTTTTATCACGTTATCACTTGGTTCTGAAATACAT
* *
83950 TCTGGAGAAAAAGTATCGACACTTGTTATATTTGTATCGATACTTTTTATACACCTGTTTTCTCA
1 TCTGGACAAAAAGTATCGACACTTGTTATATTTGTGTCGATACTTTTTATACACCTGTTTTCTCA
* *
84015 AAAATCGGTATATTTAGACCGTTTACA-TGAATAATTTACCTATTACATTATAATTATGTTTTTC
66 AAAACCGGTATATTTAGACCGGTTACATTG-ATAATTTACCTATTACATTATAATTATG-TTTTC
* *
84079 GATGTTTTCGGAATCGACACTTGTTTTAAATGCATCGACACTTTTATGTTCACTTGGTTCTGAAA
129 GATGTTTTTGGGATCGACAC---TTTT--AT-CA-CG------TTA---TCACTTGGTTCTGAAA
84144 TACAT
178 TACAT
* * * * *
84149 TCTGGCCCAAAAGTATCGACACTTGTTCTATTTGTGTCGATACTGTTTATACACATGTTTTTCTC
1 TCTGGACAAAAAGTATCGACACTTGTTATATTTGTGTCGATACTTTTTATACACCTG-TTTTCTC
* * * *
84214 AAAACCCGGTATATTTAGACCGGTTATATTGCTAATTTACCTATTATATTATAATTATGGTTTTC
65 AAAAACCGGTATATTTAGACCGGTTACATTGATAATTTACCTATTACATTATAATTAT-GTTTTC
* * *
84279 GATGTTTTTGGGATCGACACTTGTTATATATGTATCGACACTTTGTATTGCACATGGTTTTGAAA
129 GATGTTTTTGGGATCGACAC------T-T-T-TAT---CAC-GT-TA-T-CACTTGGTTCTGAAA
*
84344 TACAG
178 TACAT
* * * *
84349 TCTGGAGAAAAAGTATCGACACTTGTTAGATTTGTGTCGATACTTTTTGTACATCTGTTTTCTCA
1 TCTGGACAAAAAGTATCGACACTTGTTATATTTGTGTCGATACTTTTTATACACCTGTTTTCTCA
* **
84414 AAAACCGGAATATTTAGACCTTTTACA-TGAATAATTTACCTATTACATTATAATTATGTTTTTC
66 AAAACCGGTATATTTAGACCGGTTACATTG-ATAATTTACCTATTACATTATAATTATG-TTTTC
*
84478 GATGTTTTCGGGATCGACACTT
129 GATGTTTTTGGGATCGACACTT
84500 GTTTTAAATG
Statistics
Matches: 455, Mismatches: 56, Indels: 65
0.79 0.10 0.11
Matches are distributed among these distances:
177 3 0.01
178 116 0.25
179 11 0.02
181 4 0.01
184 1 0.00
186 1 0.00
188 1 0.00
192 1 0.00
193 1 0.00
195 2 0.00
198 3 0.01
199 150 0.33
200 145 0.32
201 5 0.01
203 3 0.01
204 3 0.01
205 2 0.00
206 3 0.01
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.41
Consensus pattern (182 bp):
TCTGGACAAAAAGTATCGACACTTGTTATATTTGTGTCGATACTTTTTATACACCTGTTTTCTCA
AAAACCGGTATATTTAGACCGGTTACATTGATAATTTACCTATTACATTATAATTATGTTTTCGA
TGTTTTTGGGATCGACACTTTTATCACGTTATCACTTGGTTCTGAAATACAT
Found at i:84163 original size:199 final size:199
Alignment explanation
Indices: 83913--84520 Score: 898
Period size: 199 Copynumber: 3.1 Consensus size: 199
83903 TGTTTTTGGG
83913 ATCGACACTTTT-TAGTACACTTGGTTTTGAAATACATTCTGGAGAAAAAGTATCGACACTTGTT
1 ATCGACACTTTTAT-GTACACTTGGTTTTGAAATACATTCTGGAGAAAAAGTATCGACACTTGTT
* *
83977 ATATTTGTATCGATACTTTTTATACACCTGTTTTCTCAAAAATCGGTATATTTAGACCGTTTACA
65 ATATTTGTGTCGATACTTTTTATACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGTTTACA
*
84042 TGAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGAATCGACACTTGTTTTA
130 TGAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTA
*
84107 AATGC
195 AATGT
* * *** *
84112 ATCGACACTTTTATGTTCACTTGGTTCTGAAATACATTCTGGCCCAAAAGTATCGACACTTGTTC
1 ATCGACACTTTTATGTACACTTGGTTTTGAAATACATTCTGGAGAAAAAGTATCGACACTTGTTA
* * * * *
84177 TATTTGTGTCGATACTGTTTATACACATGTTTTTCTCAAAACCCGGTATATTTAGACCGGTTATA
66 TATTTGTGTCGATACTTTTTATACACCTG-TTTTCTCAAAAACCGGTATATTTAGACCGTTTACA
* * * * *
84242 TTG-CTAATTTACCTATTATATTATAATTATGGTTTTCGATGTTTTTGGGATCGACACTTGTTAT
130 -TGAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTT
*
84306 ATATGT
194 AAATGT
* * *
84312 ATCGACACTTTGTAT-TGCACATGGTTTTGAAATACAGTCTGGAGAAAAAGTATCGACACTTGTT
1 ATCGACACTTT-TATGTACACTTGGTTTTGAAATACATTCTGGAGAAAAAGTATCGACACTTGTT
* * * * *
84376 AGATTTGTGTCGATACTTTTTGTACATCTGTTTTCTCAAAAACCGGAATATTTAGACCTTTTACA
65 ATATTTGTGTCGATACTTTTTATACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGTTTACA
84441 TGAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTA
130 TGAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTA
84506 AATGT
195 AATGT
84511 ATCGACACTT
1 ATCGACACTT
84521 GTTTTATTTG
Statistics
Matches: 359, Mismatches: 45, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
198 2 0.01
199 184 0.51
200 168 0.47
201 5 0.01
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.41
Consensus pattern (199 bp):
ATCGACACTTTTATGTACACTTGGTTTTGAAATACATTCTGGAGAAAAAGTATCGACACTTGTTA
TATTTGTGTCGATACTTTTTATACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGTTTACAT
GAATAATTTACCTATTACATTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAA
ATGT
Found at i:84516 original size:21 final size:21
Alignment explanation
Indices: 84490--84536 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
84480 TGTTTTCGGG
84490 ATCGACACTTGTTTTAAATGT
1 ATCGACACTTGTTTTAAATGT
**
84511 ATCGACACTTGTTTTATTTGT
1 ATCGACACTTGTTTTAAATGT
84532 ATCGA
1 ATCGA
84537 TACATTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.45
Consensus pattern (21 bp):
ATCGACACTTGTTTTAAATGT
Found at i:85938 original size:3 final size:3
Alignment explanation
Indices: 85930--85970 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
85920 ACTTGTTTGG
* *
85930 ATC ATC ATC ATC ATC ATC ATC ATC TTC ATC ATC ATC TTC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
85971 TGACCGCTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.29, C:0.32, G:0.00, T:0.39
Consensus pattern (3 bp):
ATC
Found at i:87147 original size:15 final size:14
Alignment explanation
Indices: 87124--87164 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 14
87114 GGAGGTTGTA
87124 GTTGAGAAGAGCTGG
1 GTTGAGAAGAG-TGG
*
87139 GTTGGGAAGATGTGG
1 GTTGAGAAGA-GTGG
87154 GTTGAGAAGAG
1 GTTGAGAAGAG
87165 ATTTGAGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 1 0.04
15 21 0.91
16 1 0.04
ACGTcount: A:0.27, C:0.02, G:0.49, T:0.22
Consensus pattern (14 bp):
GTTGAGAAGAGTGG
Found at i:87914 original size:198 final size:199
Alignment explanation
Indices: 87513--88212 Score: 1204
Period size: 199 Copynumber: 3.5 Consensus size: 199
87503 TTTTCAATTT
** * *
87513 AAACCGGTATATTTAGACCAATTATATTGTTAATTTACCTATTATATTATAATTATGGTTTTCGA
1 AAACCGGTATATTTAGACCGGTTATATTGCTAATTTACCTATTACATTATAATTATGGTTTTCGA
* *
87578 TTTTTTTGGGATCGACACTTGTTATAAATATATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
66 TATTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
*
87643 CATTTTGGACCAAAAGTATCGACACTTGTTCGATTTGTGTCGATACTTTTTGTACACCGGTTTTC
131 CATTTTGGACCAAAAGTATCGACACTTGTTCGATTTGTGTCGATACTTTTTGTACACCTGTTTTC
87708 TCAA
196 TCAA
*
87712 AAACCGGTATATTTAGACCGGTTATATTGCTAATTTACCTATTACATTATAATTATAGTTTTCGA
1 AAACCGGTATATTTAGACCGGTTATATTGCTAATTTACCTATTACATTATAATTATGGTTTTCGA
*
87777 TATTTTTGGGATCGACACTTGTTACAAATGTATCGACA-TTTTTAGTGCACTTGGTTTTGAAATA
66 TATTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
* * * *
87841 CATTCTAGACAAAAAGTATCGACACTTGTTCGATTTGTGTCGATACTTTTTGTACACATGTTTTC
131 CATTTTGGACCAAAAGTATCGACACTTGTTCGATTTGTGTCGATACTTTTTGTACACCTGTTTTC
87906 TCAA
196 TCAA
* *
87910 AAACCGGTATATTTAGACCGGTTATATTGCTAATTTACCTATTACGTTATAATTATGGTTTTTGA
1 AAACCGGTATATTTAGACCGGTTATATTGCTAATTTACCTATTACATTATAATTATGGTTTTCGA
87975 TATTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
66 TATTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
* * * *
88040 CATTTTGGACCAAAAGTATCGACACTTGTTTGATTTGTGTTGCTACTTTTTTTACACCTGTTTTC
131 CATTTTGGACCAAAAGTATCGACACTTGTTCGATTTGTGTCGATACTTTTTGTACACCTGTTTTC
88105 TCAA
196 TCAA
*
88109 AAACTGGTATATTTAGACCGGTTATATTGCTAATTTACCTATTACATTATAATTATGGTTTTCGA
1 AAACCGGTATATTTAGACCGGTTATATTGCTAATTTACCTATTACATTATAATTATGGTTTTCGA
*
88174 TGTTTTTGGGATCGACACTTGTTATAAATGTATCGACAC
66 TATTTTTGGGATCGACACTTGTTATAAATGTATCGACAC
88213 ATAAGTTTAC
Statistics
Matches: 471, Mismatches: 29, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
198 189 0.40
199 282 0.60
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.42
Consensus pattern (199 bp):
AAACCGGTATATTTAGACCGGTTATATTGCTAATTTACCTATTACATTATAATTATGGTTTTCGA
TATTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
CATTTTGGACCAAAAGTATCGACACTTGTTCGATTTGTGTCGATACTTTTTGTACACCTGTTTTC
TCAA
Found at i:88605 original size:18 final size:19
Alignment explanation
Indices: 88558--88606 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
88548 TTACATTCAC
*
88558 ATACAAAATTATAAATCTT
1 ATACAAAATTAAAAATCTT
88577 ATACAAAATTAAAAATCTT
1 ATACAAAATTAAAAATCTT
88596 ATAC-AAATTAA
1 ATACAAAATTAA
88607 CCATGCATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 7 0.24
19 22 0.76
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (19 bp):
ATACAAAATTAAAAATCTT
Found at i:90096 original size:18 final size:18
Alignment explanation
Indices: 90073--90110 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
90063 TTCTCCTCAT
*
90073 TTCCTCCATCTTTTCTTC
1 TTCCTCCATCTTCTCTTC
90091 TTCCTCCATCTTCTCTTC
1 TTCCTCCATCTTCTCTTC
90109 TT
1 TT
90111 TAAATTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.05, C:0.39, G:0.00, T:0.55
Consensus pattern (18 bp):
TTCCTCCATCTTCTCTTC
Found at i:90828 original size:22 final size:23
Alignment explanation
Indices: 90800--90847 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
90790 AACCTGTATT
90800 TATAATAAA-AGT-TATCATTTTA
1 TATAATAAATA-TATATCATTTTA
90822 TATAATAAATATACTATCATTTTA
1 TATAATAAATATA-TATCATTTTA
90846 TA
1 TA
90848 AAAAAACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 10 0.43
23 1 0.04
24 12 0.52
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (23 bp):
TATAATAAATATATATCATTTTA
Found at i:91839 original size:18 final size:18
Alignment explanation
Indices: 91816--91854 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
91806 TACTGTCAAC
91816 ATTTAAAATTTGTAAT-CA
1 ATTTAAAATTT-TAATCCA
*
91834 ATTTAAAGTTTTAATCCA
1 ATTTAAAATTTTAATCCA
91852 ATT
1 ATT
91855 ACCATTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (18 bp):
ATTTAAAATTTTAATCCA
Found at i:92152 original size:19 final size:20
Alignment explanation
Indices: 92105--92153 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
92095 TATTTATACA
92105 ACCTA-AAATATCATTTTCT
1 ACCTATAAATATCATTTTCT
*
92124 ACTTAT-AATATCATTTT-T
1 ACCTATAAATATCATTTTCT
92142 ACCTATAAATAT
1 ACCTATAAATAT
92154 TAACTAAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 6 0.23
19 20 0.77
ACGTcount: A:0.39, C:0.16, G:0.00, T:0.45
Consensus pattern (20 bp):
ACCTATAAATATCATTTTCT
Found at i:92848 original size:182 final size:182
Alignment explanation
Indices: 92537--93035 Score: 779
Period size: 182 Copynumber: 2.7 Consensus size: 182
92527 TATGCGTACT
* * * *
92537 TATTAAAGTATCGACACTTTCAACATATCCGGT-ATCTATTTACCGGTTTTGTGA-TTTTGAGAC
1 TATTAAATTATCGACACTTTCAACATATCTGGTAAT-T-TTTTCCGGTTTTGTCATTTTTGAGAC
* * * *
92600 CGGTTTTATCATACTTTTACCTGTTATATTGTTCTGGATCGATACATTTTCATAAAGTGCCGACA
64 CAGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACA
* *
92665 CTTTTTAAGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTA
129 CTTTTTAAGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTATCGATACTAA
**
92719 TATTAAATTATCGACACTTTCAACATATCTGGTAATTTTTTCCGGTTTTGTCATTTTTGAGACTT
1 TATTAAATTATCGACACTTTCAACATATCTGGTAATTTTTTCCGGTTTTGTCATTTTTGAGACCA
* * * *
92784 GTTTTATCATATTTTTACCTGTTATATTGATAAGGATCGATACATTTTAATAAAGTATCGACACT
66 GTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACT
*
92849 TTTTAAGCGCTATAATTTCTTCTCTTTTAAATTCAGAAAGTATCGATACTAA
131 TTTTAAGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTATCGATACTAA
* *
92901 TATTAAATTATCGACACTTTCAATATATCTGGTAACTTTTTT-CGGTTTTGTCATTTTTTAGACC
1 TATTAAATTATCGACACTTTCAACATATCTGGTAA-TTTTTTCCGGTTTTGTCATTTTTGAGACC
92965 AGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACAC
65 AGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACAC
93030 TTTTTA
130 TTTTTA
93036 GTTTAATTTC
Statistics
Matches: 290, Mismatches: 24, Indels: 6
0.91 0.08 0.02
Matches are distributed among these distances:
181 14 0.05
182 268 0.92
183 8 0.03
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.44
Consensus pattern (182 bp):
TATTAAATTATCGACACTTTCAACATATCTGGTAATTTTTTCCGGTTTTGTCATTTTTGAGACCA
GTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACT
TTTTAAGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTATCGATACTAA
Found at i:93192 original size:163 final size:163
Alignment explanation
Indices: 92874--93195 Score: 466
Period size: 163 Copynumber: 2.0 Consensus size: 163
92864 TTTCTTCTCT
* *
92874 TTTAAATTCAGAAAGTATCGATACTAATATTAAATTATCGACACTTTCAATATATCTGGTAACTT
1 TTTAAATTCAGAAAGTATCGATACTAATATTAAATTATCGACACTTTCAACATATCTGGTAACGT
* * * * *
92939 TTTTCGGTTTTGTCATTTTTTAGACCAGTTTTATCATATTTTTACCTGTTATATTGTTATGGATC
66 TTTACGGTTTTGTAAATTTTGAGACCAGTTTTATCATATTTTTACATGTTATATTGTTATGGATC
*
93004 GATACATTTTCATAAAGTGTCGACACTTTTTAG
131 GATACATTTTCATAAAGTATCGACACTTTTTAG
* * * *
93037 TTTAATTTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCTGGTATCGT
1 TTTAAATTCAGAAAGTATCGATACTAATATTAAATTATCGACACTTTCAACATATCTGGTAACGT
* * *
93102 TTTACTGGTTTTGTAAATTTTGGGACCTGTTTTATCATATTTTTACATGTTATATTGTTGTGGAT
66 TTTAC-GGTTTTGTAAATTTTGAGACCAGTTTTATCATATTTTTACATGTTATATTGTTATGGAT
* * *
93167 CGATATATTTT-TTTAAGTATCGACACTTT
130 CGATACATTTTCATAAAGTATCGACACTTT
93196 ATAGGCGCTA
Statistics
Matches: 140, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
163 78 0.56
164 62 0.44
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.46
Consensus pattern (163 bp):
TTTAAATTCAGAAAGTATCGATACTAATATTAAATTATCGACACTTTCAACATATCTGGTAACGT
TTTACGGTTTTGTAAATTTTGAGACCAGTTTTATCATATTTTTACATGTTATATTGTTATGGATC
GATACATTTTCATAAAGTATCGACACTTTTTAG
Found at i:93504 original size:182 final size:183
Alignment explanation
Indices: 93037--93905 Score: 1140
Period size: 182 Copynumber: 4.8 Consensus size: 183
93027 CACTTTTTAG
* * *
93037 TTTAATTTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCTGGTATCGT
1 TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTAACGT
* * * *
93102 TTTACTGGTTTTGTAAATTTTGGGACCTGTTTTATCATATTTTTACATGTTATATTGTTGTGGAT
66 TTTACTGGTTTTGTCAATTTTGAGACCTGTTTTATCATATTTTTACCTGTTATATTGTTATGGAT
* * *
93167 CGATATATTTT-TTTAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCT
131 CGATACATTTTCATAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCT
* * *
93219 TTTAAATTCAGAAAGTTTCGATACTTATATTAAATTATCGACACTTTCAATATATCCGGTAGCGT
1 TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTAACGT
*
93284 TTTACTGGTTTTGTCAATTTTGAGACTTGTTTTATCATATTTTTACCTGTTATATTGTTATGGAT
66 TTTACTGGTTTTGTCAATTTTGAGACCTGTTTTATCATATTTTTACCTGTTATATTGTTATGGAT
* * * * * *
93349 CAATACATTTTCATAAAGTGTCGACACTTTTTAAGCGCAATAACTTTTTCTCT
131 CGATACATTTTCATAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCT
* * *
93402 TTTAAATTTAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTTAACATATCCGATAAC-T
1 TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTAACGT
** * * * * * *
93466 TTTTTTGATTTTGTCATTTTTTAGACCTGTTTTATCATATTTTTACTTGTTATATTGGTAAGGAT
66 TTTACTGGTTTTGTCAATTTTGAGACCTGTTTTATCATATTTTTACCTGTTATATTGTTATGGAT
* * *
93531 CGATACATTTTCATAAAGTGTCGACACTTTTTAGGCGCTATAACTTATTCTCT
131 CGATACATTTTCATAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCT
* * *
93584 TTTAAATTCAGAAAGTGTCGATACTAATATTAAATTATCGACACTTTCAATATATCCGGTAA-TT
1 TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTAACGT
* * * ** *
93648 TTTTCCGGTTTTGTCATTTTTGAGACCAATTTTATCATATTTTTACCTGTTATATTGTTGTGGAT
66 TTTACTGGTTTTGTCAATTTTGAGACCTGTTTTATCATATTTTTACCTGTTATATTGTTATGGAT
* ** *
93713 CGATATATTTTTTTAAAATATCGACACTTTATAGGCGCTATAACTTCTTCTCT
131 CGATACATTTTCATAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCT
* **
93766 TTTAAATTCAGAAAGTTTCGATACTTATATTAAATTATCGACAC--TCGACACATATCCGGTAGT
1 TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTC-A-ACATATCCGGTAAC
* * * * * *
93829 GTTTTACCGGTTTTGTC-ATTTT-AGGACCGGTTTTGTCATATTTGTACCTGTAATATTGCTATG
64 GTTTTACTGGTTTTGTCAATTTTGA-GACCTGTTTTATCATATTTTTACCTGTTATATTGTTATG
* *
93892 GAGCGATCCATTTT
128 GATCGATACATTTT
93906 TCATTTGTAT
Statistics
Matches: 604, Mismatches: 77, Indels: 12
0.87 0.11 0.02
Matches are distributed among these distances:
180 2 0.00
181 2 0.00
182 494 0.82
183 106 0.18
ACGTcount: A:0.27, C:0.15, G:0.13, T:0.45
Consensus pattern (183 bp):
TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTAACGT
TTTACTGGTTTTGTCAATTTTGAGACCTGTTTTATCATATTTTTACCTGTTATATTGTTATGGAT
CGATACATTTTCATAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCT
Found at i:94133 original size:20 final size:20
Alignment explanation
Indices: 94108--94150 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
94098 AGAATCCCTC
94108 TCTCTTCCGATATATTCAAG
1 TCTCTTCCGATATATTCAAG
94128 TCTCTTCCGATATATTCAAG
1 TCTCTTCCGATATATTCAAG
94148 TCT
1 TCT
94151 TTACCATCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.23, C:0.26, G:0.09, T:0.42
Consensus pattern (20 bp):
TCTCTTCCGATATATTCAAG
Found at i:100567 original size:28 final size:29
Alignment explanation
Indices: 100536--100604 Score: 88
Period size: 28 Copynumber: 2.4 Consensus size: 29
100526 ATGTAGTGAT
* *
100536 TGTAAAAATATAG-GTTGTTATTGTTATA
1 TGTAAAAATATAGAGTTATTATTGTAATA
*
100564 TGTAAAAATAT-GAGTTATTATTGTAATT
1 TGTAAAAATATAGAGTTATTATTGTAATA
100592 TGTAAAAAGTATA
1 TGTAAAAA-TATA
100605 TGTCAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 1 0.03
28 31 0.89
29 3 0.09
ACGTcount: A:0.41, C:0.00, G:0.16, T:0.43
Consensus pattern (29 bp):
TGTAAAAATATAGAGTTATTATTGTAATA
Found at i:100643 original size:29 final size:29
Alignment explanation
Indices: 100581--100777 Score: 182
Period size: 29 Copynumber: 6.8 Consensus size: 29
100571 ATATGAGTTA
* * *
100581 TTATTGTAATTTGTAAAAAGTATATGTC-A
1 TTATTGTAATTTATAAAAAG-ATTTGTCTT
* *
100610 GTATTGTAATTTATAAAAAGATTTGTTTT
1 TTATTGTAATTTATAAAAAGATTTGTCTT
* *
100639 TTATTTTAAATTATAAAAAGATTTGTCTT
1 TTATTGTAATTTATAAAAAGATTTGTCTT
* *
100668 TTATTGTAATTTATAAGAAGATTTATCTT
1 TTATTGTAATTTATAAAAAGATTTGTCTT
* * * * **
100697 CTATTATAATTTATAAAAAGAATTGCCCA
1 TTATTGTAATTTATAAAAAGATTTGTCTT
** *
100726 TTATTGTAATTTATAAAAATCTTTGTCCT
1 TTATTGTAATTTATAAAAAGATTTGTCTT
* * *
100755 TAAATGTAATTTA-AAAAATATTT
1 TTATTGTAATTTATAAAAAGATTT
100778 AATTTTAATT
Statistics
Matches: 136, Mismatches: 31, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
28 14 0.10
29 122 0.90
ACGTcount: A:0.39, C:0.05, G:0.09, T:0.47
Consensus pattern (29 bp):
TTATTGTAATTTATAAAAAGATTTGTCTT
Found at i:104777 original size:2 final size:2
Alignment explanation
Indices: 104770--104815 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
104760 AGGGATATGC
104770 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
104812 AT AT
1 AT AT
104816 GTTCCTCACA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:108015 original size:4 final size:4
Alignment explanation
Indices: 108006--108032 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
107996 CCTAACATAT
108006 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
108033 GATGAGTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:109288 original size:19 final size:19
Alignment explanation
Indices: 109261--109300 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
109251 TACAGTAATC
*
109261 TCATTGGTCGCCAAGTGCT
1 TCATAGGTCGCCAAGTGCT
*
109280 TCATAGGTCGTCAAGTGCT
1 TCATAGGTCGCCAAGTGCT
109299 TC
1 TC
109301 TTGCGACAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.17, C:0.25, G:0.25, T:0.33
Consensus pattern (19 bp):
TCATAGGTCGCCAAGTGCT
Found at i:111522 original size:41 final size:41
Alignment explanation
Indices: 111484--111568 Score: 143
Period size: 41 Copynumber: 2.1 Consensus size: 41
111474 ATTTTTTATT
111484 TTTAAGTTGTTAAAAAGATTACCTAAGTGGTGAATTTTAGA
1 TTTAAGTTGTTAAAAAGATTACCTAAGTGGTGAATTTTAGA
* * *
111525 TTTAAGTTGTTAAAAAGATTACCTGAGTGGTTAATTTGAGA
1 TTTAAGTTGTTAAAAAGATTACCTAAGTGGTGAATTTTAGA
111566 TTT
1 TTT
111569 TCTTTCTCAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.34, C:0.05, G:0.20, T:0.41
Consensus pattern (41 bp):
TTTAAGTTGTTAAAAAGATTACCTAAGTGGTGAATTTTAGA
Found at i:112086 original size:2 final size:2
Alignment explanation
Indices: 112079--112107 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
112069 CCTTTTTGTA
112079 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 A
112108 AAGACCAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:122098 original size:355 final size:355
Alignment explanation
Indices: 121447--122151 Score: 1329
Period size: 355 Copynumber: 2.0 Consensus size: 355
121437 GGGGTCCATC
121447 TTTTTTTTTTAATAGAAAGGGGTCCTTCTTAATTTCTTTGTAATTGGATGTTTTTGGTTGTATTA
1 TTTTTTTTTTAATAGAAAGGGGTCCTTCTTAATTTCTTTGTAATTGGATGTTTTTGGTTGTATTA
121512 TTATGAGGTTGAAATTGAAACTGTTAAAGATCTCAAGAAGAGGTGGAGTATGCAATTAGGCATTG
66 TTATGAGGTTGAAATTGAAACTGTTAAAGATCTCAAGAAGAGGTGGAGTATGCAATTAGGCATTG
*
121577 CTGAATGTCCTAGGCTTTCTTTTTCTCTTTTTTCTTTTTTTTGGGTTAAAAATTGAAGGTCGCAT
131 CTGAATGTCCTAGGCTTTCTTTTTCTCTTTTTTCTTTTTTTTGGGTTAAAAATTGAAGGTCACAT
*
121642 TAAAACCCTCTTCATACTTGCAAACATACCTAATAAGTATATCAAACAAGTATCGGAAGGAGGAA
196 TAAAACCCTCTTCATACTTGCAAACATACCTAATAAGTATATCAAACAAGTAGCGGAAGGAGGAA
* *
121707 AAGAGTACCTCATTTATTATTAAAACTTTTAGTTCAGTACACCCACACAAAAAGCAACACTTACA
261 AAGAATACCTCATTTATTATTAAAACTTTTAGTTCAGTACACCAACACAAAAAGCAACACTTACA
*
121772 AATGGTACATCACCCAACTATACAACCTCT
326 AACGGTACATCACCCAACTATACAACCTCT
121802 TTTTTTTTTTAATAGAAAGGGGTCCTTCTTAATTTCTTTGTAATTGGATGTTTTTGGTTGTATTA
1 TTTTTTTTTTAATAGAAAGGGGTCCTTCTTAATTTCTTTGTAATTGGATGTTTTTGGTTGTATTA
121867 TTATGAGGTTGAAATTGAAACTGTTAAAGATCTCAAGAAGAGGTGGAGTATGCAATTAGGCATTG
66 TTATGAGGTTGAAATTGAAACTGTTAAAGATCTCAAGAAGAGGTGGAGTATGCAATTAGGCATTG
*
121932 CTGAATGTCCTAGGCTTTCTTTTTCTCTTTTTTCTTTTTTTTGGGTTAAAAATTGGAGGTCACAT
131 CTGAATGTCCTAGGCTTTCTTTTTCTCTTTTTTCTTTTTTTTGGGTTAAAAATTGAAGGTCACAT
* * *
121997 TAAAACTCTCTTCATACTTGCAGACATACCTAATAAGTATATCAAATAAGTAGCGGAAGGAGGAA
196 TAAAACCCTCTTCATACTTGCAAACATACCTAATAAGTATATCAAACAAGTAGCGGAAGGAGGAA
122062 AAGAATACCTCATTTATTATTAAAACTTTTAGTTCAGTACACCAACACAAAAAGCAACACTTACA
261 AAGAATACCTCATTTATTATTAAAACTTTTAGTTCAGTACACCAACACAAAAAGCAACACTTACA
122127 AACGGTACATCACCCAACTATACAA
326 AACGGTACATCACCCAACTATACAA
122152 ACCCCCCCCC
Statistics
Matches: 341, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
355 341 1.00
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.36
Consensus pattern (355 bp):
TTTTTTTTTTAATAGAAAGGGGTCCTTCTTAATTTCTTTGTAATTGGATGTTTTTGGTTGTATTA
TTATGAGGTTGAAATTGAAACTGTTAAAGATCTCAAGAAGAGGTGGAGTATGCAATTAGGCATTG
CTGAATGTCCTAGGCTTTCTTTTTCTCTTTTTTCTTTTTTTTGGGTTAAAAATTGAAGGTCACAT
TAAAACCCTCTTCATACTTGCAAACATACCTAATAAGTATATCAAACAAGTAGCGGAAGGAGGAA
AAGAATACCTCATTTATTATTAAAACTTTTAGTTCAGTACACCAACACAAAAAGCAACACTTACA
AACGGTACATCACCCAACTATACAACCTCT
Found at i:124217 original size:36 final size:36
Alignment explanation
Indices: 124170--124242 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
124160 TGACTTTCTC
124170 TTATGTTTCATTTTGAACTTTTATTCAGTTAGCATT
1 TTATGTTTCATTTTGAACTTTTATTCAGTTAGCATT
124206 TTATGTTTCATTTTGAACTTTTATTCAGTTAGCATT
1 TTATGTTTCATTTTGAACTTTTATTCAGTTAGCATT
124242 T
1 T
124243 CTTTTGGGTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.22, C:0.11, G:0.11, T:0.56
Consensus pattern (36 bp):
TTATGTTTCATTTTGAACTTTTATTCAGTTAGCATT
Found at i:141769 original size:3 final size:3
Alignment explanation
Indices: 141761--141805 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
141751 CCTGTTTGTA
141761 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
141806 TTAATTTTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:141819 original size:3 final size:3
Alignment explanation
Indices: 141813--141909 Score: 106
Period size: 3 Copynumber: 32.0 Consensus size: 3
141803 ATTTTAATTT
* *
141813 TAA TAA TAA TAA T-A TATA TATA TAA TAA TTA TAA TAA TAA TAA TTA
1 TAA TAA TAA TAA TAA TA-A TA-A TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
141859 TGA TAA TAA TTA TAA TAA TAA TAA TTA TGA TAA TAA TTA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
141907 TAA
1 TAA
141910 AATGGGTAAA
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
2 2 0.03
3 71 0.89
4 7 0.09
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:141872 original size:27 final size:27
Alignment explanation
Indices: 141815--141909 Score: 165
Period size: 27 Copynumber: 3.5 Consensus size: 27
141805 TTTAATTTTA
141815 ATAATAATAATATATATAT-ATAATAATT
1 ATAATAATAATA-AT-TATGATAATAATT
141843 ATAATAATAATAATTATGATAATAATT
1 ATAATAATAATAATTATGATAATAATT
141870 ATAATAATAATAATTATGATAATAATT
1 ATAATAATAATAATTATGATAATAATT
141897 ATAATAATAATAA
1 ATAATAATAATAA
141910 AATGGGTAAA
Statistics
Matches: 66, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
26 3 0.05
27 51 0.77
28 12 0.18
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (27 bp):
ATAATAATAATAATTATGATAATAATT
Found at i:142397 original size:114 final size:113
Alignment explanation
Indices: 142150--142915 Score: 1059
Period size: 113 Copynumber: 6.8 Consensus size: 113
142140 TTAAATAAGC
* ** *
142150 TCTTCTCATTATGAACTTCTTCTTTCTCCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGT
1 TCTTCTCATTATGAACTTCTTCTTTCTCCTTCAGATGAGTTCTTCTCATTATGAACTCTAACTGG
* * * * * *
142215 AAAGGTTGATCCATCAAGTGATGAATTTGAACAAAAGGTTAAACAAGT
66 AAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAAT
* **
142263 TCTTCTCATTATGAACTTCTTCTTTCTCCTTCAGATGAGTTCTTCTCATTATGAACTTTTTTCTG
1 TCTTCTCATTATGAACTTCTTCTTTCTCCTTCAGATGAGTTCTTCTCATTATGAAC-TCTAACTG
142328 GAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAAT
65 GAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAAT
* * * * *
142377 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTCGAACTAG
1 TCTTCTCATTATGAACTTCTTCTTTCTCCTTCAGATGAGTTCTTCTCATTATGAACTCTAACTGG
*
142442 AAAAGTTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAAT
66 AAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAAT
* **
142490 TCTTCTCATTATGAACTTCTTCTTTCTCCTTCAGATGAGTTCTTCTCATTATGAACTTTTTTCTG
1 TCTTCTCATTATGAACTTCTTCTTTCTCCTTCAGATGAGTTCTTCTCATTATGAAC-TCTAACTG
*
142555 GAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTAAACAAAT
65 GAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAAT
* * *
142604 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGG
1 TCTTCTCATTATGAACTTCTTCTTTCTCCTTCAGATGAGTTCTTCTCATTATGAACTCTAACTGG
* * *
142669 AAAAGCTGATCCATCAAATGATGGATTTAAGCAAAA-GTTGAACAAGT
66 AAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAAT
* *
142716 TCTTCTTATTATGAA------CTTT-T-CTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGG
1 TCTTCTCATTATGAACTTCTTCTTTCTCCTTCAGATGAGTTCTTCTCATTATGAACTCTAACTGG
* *
142773 CAAAGCTGATCCATTGAA-TGATGGATTTGAGCAAAAGGTTGAACAAAT
66 AAAAGCTGATCCA-TCAAGTGATGGATTTGAGCAAAAGGTTGAACAAAT
* * * * * *
142821 TCTTCTTATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTTTCATTATGAACTCGAACTGG
1 TCTTCTCATTATGAACTTCTTCTTTCTCCTTCAGATGAGTTCTTCTCATTATGAACTCTAACTGG
*
142886 AAAAGCTGATCCATTGAA-TGATGGATTTGA
66 AAAAGCTGATCCA-TCAAGTGATGGATTTGA
142916 ATTTTTGCTA
Statistics
Matches: 591, Mismatches: 50, Indels: 24
0.89 0.08 0.04
Matches are distributed among these distances:
104 64 0.11
105 29 0.05
106 3 0.01
111 3 0.01
112 24 0.04
113 262 0.44
114 206 0.35
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (113 bp):
TCTTCTCATTATGAACTTCTTCTTTCTCCTTCAGATGAGTTCTTCTCATTATGAACTCTAACTGG
AAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAAT
Found at i:142461 original size:227 final size:227
Alignment explanation
Indices: 142150--142916 Score: 1164
Period size: 227 Copynumber: 3.4 Consensus size: 227
142140 TTAAATAAGC
* * **** *
142150 TCTTCTCATTATGAACTTCTTCTTTCTCCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGT
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGG
* * * *
142215 AAAGGTTGATCCATCAAGTGATGAATTTGAACAAAAGGTTAAACAAGTTCTTCTCATTATGAACT
66 AAAAGCTGATCCATCAAGTGATGGATTTGAACAAAAGGTTGAACAAGTTCTTCTCATTATGAACT
142280 TCTTCTTTCTCCTTCAGATGAGTTCTTCTCATTATGAACTTTTTTCTGGAAAAGCTGATCCATCA
131 TCTTCTTTCTCCTTCAGATGAGTTCTTCTCATTATGAACTTTTTTCTGGAAAAGCTGATCCATCA
142345 AGTGATGGATTTGAGCAAAAGGTTGAACAAAT
196 AGTGATGGATTTGAGCAAAAGGTTGAACAAAT
* *
142377 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTCGAACTAG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGG
* * *
142442 AAAAGTTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACT
66 AAAAGCTGATCCATCAAGTGATGGATTTGAACAAAAGGTTGAACAAGTTCTTCTCATTATGAACT
142507 TCTTCTTTCTCCTTCAGATGAGTTCTTCTCATTATGAACTTTTTTCTGGAAAAGCTGATCCATCA
131 TCTTCTTTCTCCTTCAGATGAGTTCTTCTCATTATGAACTTTTTTCTGGAAAAGCTGATCCATCA
*
142572 AGTGATGGATTTGAGCAAAAGGTTAAACAAAT
196 AGTGATGGATTTGAGCAAAAGGTTGAACAAAT
142604 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGG
* *
142669 AAAAGCTGATCCATCAAATGATGGATTT-AAGCAAAA-GTTGAACAAGTTCTTCTTATTATGAA-
66 AAAAGCTGATCCATCAAGTGATGGATTTGAA-CAAAAGGTTGAACAAGTTCTTCTCATTATGAAC
* ** *
142731 -----CTTT-T-CTTCAGATGAGTTCTTCTCATTATGAAC-TCTACCTGGCAAAGCTGATCCATT
130 TTCTTCTTTCTCCTTCAGATGAGTTCTTCTCATTATGAACTTTTTTCTGGAAAAGCTGATCCA-T
*
142788 GAA-TGATGGATTTGAGCAAAAGGTTGAACAAAT
194 CAAGTGATGGATTTGAGCAAAAGGTTGAACAAAT
* * *
142821 TCTTCTTATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTTTCATTATGAACTCGAACTGG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGG
*
142886 AAAAGCTGATCCATTGAA-TGATGGATTTGAA
66 AAAAGCTGATCCA-TCAAGTGATGGATTTGAA
142917 TTTTTGCTAA
Statistics
Matches: 504, Mismatches: 32, Indels: 17
0.91 0.06 0.03
Matches are distributed among these distances:
217 132 0.26
218 36 0.07
219 1 0.00
220 4 0.01
226 25 0.05
227 306 0.61
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (227 bp):
TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGG
AAAAGCTGATCCATCAAGTGATGGATTTGAACAAAAGGTTGAACAAGTTCTTCTCATTATGAACT
TCTTCTTTCTCCTTCAGATGAGTTCTTCTCATTATGAACTTTTTTCTGGAAAAGCTGATCCATCA
AGTGATGGATTTGAGCAAAAGGTTGAACAAAT
Found at i:143744 original size:92 final size:92
Alignment explanation
Indices: 143640--143876 Score: 438
Period size: 92 Copynumber: 2.6 Consensus size: 92
143630 GGTTTTATAT
*
143640 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAA
*
143705 TTCAATAACTGGTTTTGTGGTTCATAC
66 TTCAATAACTGGTTCTGTGGTTCATAC
* *
143732 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGGTGCTATGAGCATATTCATCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAA
143797 TTCAATAACTGGTTCTGTGGTTCATAC
66 TTCAATAACTGGTTCTGTGGTTCATAC
143824 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACAT
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACAT
143877 GGCATTTGTT
Statistics
Matches: 139, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 139 1.00
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.25
Consensus pattern (92 bp):
CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAA
TTCAATAACTGGTTCTGTGGTTCATAC
Found at i:145249 original size:9 final size:9
Alignment explanation
Indices: 145237--145278 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
145227 TTGACCCCCT
145237 TTTTTTTTC
1 TTTTTTTTC
*
145246 TTTTTTTCCC
1 TTTTTTT-TC
145256 TTTTTTTTC
1 TTTTTTTTC
*
145265 TTTCTTTTC
1 TTTTTTTTC
145274 TTTTT
1 TTTTT
145279 CTCTTTAAGC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
9 20 0.71
10 8 0.29
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:145256 original size:20 final size:20
Alignment explanation
Indices: 145237--145273 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 20
145227 TTGACCCCCT
145237 TTTTTTTTCTTT-TTTTCCC
1 TTTTTTTTCTTTCTTTTCCC
145256 TTTTTTTTCTTTCTTTTC
1 TTTTTTTTCTTTCTTTTC
145274 TTTTTCTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (20 bp):
TTTTTTTTCTTTCTTTTCCC
Found at i:145278 original size:19 final size:19
Alignment explanation
Indices: 145234--145278 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
145224 ACCTTGACCC
145234 CCTTTTTTTTTCTTTTTTT
1 CCTTTTTTTTTCTTTTTTT
*
145253 CCCTTTTTTTTCTTTCTTTT
1 CCTTTTTTTTTCTTT-TTTT
145273 -CTTTTT
1 CCTTTTT
145279 CTCTTTAAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (19 bp):
CCTTTTTTTTTCTTTTTTT
Found at i:155385 original size:9 final size:9
Alignment explanation
Indices: 155371--155395 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
155361 TAAACATGCT
155371 TTTAAATAA
1 TTTAAATAA
155380 TTTAAATAA
1 TTTAAATAA
155389 TTTAAAT
1 TTTAAAT
155396 TCACATGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (9 bp):
TTTAAATAA
Found at i:158091 original size:3 final size:3
Alignment explanation
Indices: 158085--158145 Score: 61
Period size: 3 Copynumber: 20.0 Consensus size: 3
158075 TTTTTAATTT
* * *
158085 TAA TAA TAA TAA T-A TATA TATA TAA TAA TTA TAA TTA TGA TAA TAA
1 TAA TAA TAA TAA TAA TA-A TA-A TAA TAA TAA TAA TAA TAA TAA TAA
*
158131 TTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA
158146 AATGGGTAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
2 2 0.04
3 40 0.82
4 7 0.14
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:163416 original size:23 final size:23
Alignment explanation
Indices: 163375--163418 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
163365 CATTTTATAT
* * *
163375 GGCACTTCGGTGCATTTCTACAC
1 GGCACTTCGATACAATTCTACAC
163398 GGCACTTCGATACAATTCTAC
1 GGCACTTCGATACAATTCTAC
163419 GTTACACTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.30
Consensus pattern (23 bp):
GGCACTTCGATACAATTCTACAC
Found at i:164367 original size:19 final size:19
Alignment explanation
Indices: 164343--164395 Score: 88
Period size: 19 Copynumber: 2.8 Consensus size: 19
164333 TCATTCATGT
* *
164343 AGTTAACCCTTTGTTATGC
1 AGTTAACCATTTGTTATAC
164362 AGTTAACCATTTGTTATAC
1 AGTTAACCATTTGTTATAC
164381 AGTTAACCATTTGTT
1 AGTTAACCATTTGTT
164396 TTTTATTGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.43
Consensus pattern (19 bp):
AGTTAACCATTTGTTATAC
Found at i:169766 original size:21 final size:21
Alignment explanation
Indices: 169740--169784 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
169730 GATTTCTGGC
* *
169740 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
169761 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
169782 CAA
1 CAA
169785 ACGAACAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:171653 original size:23 final size:23
Alignment explanation
Indices: 171609--171653 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
171599 ATCATTATAT
*
171609 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
* *
171632 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
171654 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:173770 original size:22 final size:22
Alignment explanation
Indices: 173738--173791 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
173728 GTTACAAATC
*
173738 TGAATATATAGGTAAGGTTCTA
1 TGAATACATAGGTAAGGTTCTA
173760 TGAATACATAGGTAAGGTTCTA
1 TGAATACATAGGTAAGGTTCTA
173782 TGAATACATA
1 TGAATACATA
173792 TGCACACTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.39, C:0.07, G:0.20, T:0.33
Consensus pattern (22 bp):
TGAATACATAGGTAAGGTTCTA
Done.