Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008927.1 Hibiscus syriacus cultivar Beakdansim tig00112232_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: 138019
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Found at i:3667 original size:19 final size:19
Alignment explanation
Indices: 3643--3681 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
3633 GATCCTCTAT
3643 ATATTTATTAATTGGCACA
1 ATATTTATTAATTGGCACA
3662 ATATTTATTAATTGGCACA
1 ATATTTATTAATTGGCACA
3681 A
1 A
3682 ATCGAGTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.41
Consensus pattern (19 bp):
ATATTTATTAATTGGCACA
Found at i:7610 original size:5 final size:6
Alignment explanation
Indices: 7580--7609 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
7570 GCAAATTATC
7580 TTAAAA TTAAAA TTAAAA TTAAAA -TAAAA T
1 TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA T
7610 ATGAAACATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
TTAAAA
Found at i:11871 original size:21 final size:21
Alignment explanation
Indices: 11845--11905 Score: 104
Period size: 21 Copynumber: 2.9 Consensus size: 21
11835 ATAACCCCAG
11845 GGGGGGTATCGATTCCCCTGT
1 GGGGGGTATCGATTCCCCTGT
11866 GGGGGGTATCGATTCCCCTGT
1 GGGGGGTATCGATTCCCCTGT
* *
11887 GGGGGGAATCGGTTCCCCT
1 GGGGGGTATCGATTCCCCT
11906 TCAAAGGGGG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.10, C:0.25, G:0.39, T:0.26
Consensus pattern (21 bp):
GGGGGGTATCGATTCCCCTGT
Found at i:11937 original size:21 final size:21
Alignment explanation
Indices: 11843--11947 Score: 81
Period size: 21 Copynumber: 5.0 Consensus size: 21
11833 ACATAACCCC
* *
11843 AGGGGGGGTATCGATTCCCCT
1 AGGGGGGGAATCGATTCCCTT
* *
11864 -GTGGGGGGTATCGATTCCCCT
1 AG-GGGGGGAATCGATTCCCTT
*
11885 -GTGGGGGGAATCGGTTCCCCTT
1 AG-GGGGGGAATCGATT-CCCTT
** *
11907 CAAAGGGGGAATCGGTTCCCTT
1 -AGGGGGGGAATCGATTCCCTT
11929 AGGGGGGG-ATCGATTCCCT
1 AGGGGGGGAATCGATTCCCT
11948 CCGCACCAAA
Statistics
Matches: 72, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
20 11 0.15
21 39 0.54
22 9 0.12
23 13 0.18
ACGTcount: A:0.14, C:0.23, G:0.38, T:0.25
Consensus pattern (21 bp):
AGGGGGGGAATCGATTCCCTT
Found at i:19067 original size:21 final size:22
Alignment explanation
Indices: 19016--19067 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 22
19006 AATCGTATTC
*
19016 TTATTTTAATTATAAATTTCAAT
1 TTATTTT-ATTATAAATTTCAAA
* *
19039 TTA-ATTATT-TAAATTTTAAA
1 TTATTTTATTATAAATTTCAAA
19059 TTATTTTAT
1 TTATTTTAT
19068 CCTTATATCA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
20 12 0.50
21 7 0.29
22 2 0.08
23 3 0.12
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (22 bp):
TTATTTTATTATAAATTTCAAA
Found at i:22874 original size:26 final size:25
Alignment explanation
Indices: 22845--22893 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
22835 CGAAATAAAT
*
22845 AAATAAATAAATATCAAATAAAAAAG
1 AAATAAAAAAATAT-AAATAAAAAAG
*
22871 AAATAAAAAAATATATATAAAAA
1 AAATAAAAAAATATAAATAAAAA
22894 TATATTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (25 bp):
AAATAAAAAAATATAAATAAAAAAG
Found at i:23028 original size:37 final size:35
Alignment explanation
Indices: 22917--23268 Score: 231
Period size: 37 Copynumber: 9.5 Consensus size: 35
22907 ATTATATTTT
* *
22917 ATATATGATTTT-AAAAATGGTTTTCAAAACCATATAA
1 ATATAT-ATTTTCAAAAAT-GTTTTAAAAACTATAT-A
*
22954 TATAATATATTTTCAAAAAAATATTTT--AAA-T-T-T-
1 -AT-ATATATTTTC--AAAAATGTTTTAAAAACTATATA
*
22987 ATATATATTTTCAAACATGTTTTTGAAAAACTATATA
1 ATATATATTTTCAAAAATG-TTTT-AAAAACTATATA
* * *
23024 ATATACAATTGTTTTCAAAAATATTTTTTCCAAAA-TAATATA
1 ATAT---A-TATTTTC-AAAA-ATGTTTT-AAAAACT-ATATA
* *
23066 TTATATAAGTTTTC-AAAATGATTTAAAAAACTATATA
1 ATATAT-A-TTTTCAAAAATG-TTTTAAAAACTATATA
*
23103 TTATATATATTTT-AAAAATGTTTTTAAAAATTATATA
1 --ATATATATTTTCAAAAATG-TTTTAAAAACTATATA
*
23140 ATATATAATTTTTTAAAAATGTTTTAAAAACTATATA
1 ATATAT-A-TTTTCAAAAATGTTTTAAAAACTATATA
* *
23177 TTATATAATTTTCGAAAATGTTTTAAAAACTATATA
1 ATATAT-ATTTTCAAAAATGTTTTAAAAACTATATA
*
23213 ATATATAGTTTCAAAAATGTTTT-AAAACTATATA
1 ATATATATTTTCAAAAATGTTTTAAAAACTATATA
23247 TCATATACATATTTTCAAAAAT
1 --ATAT--ATATTTTCAAAAAT
23269 CATTTGTAAA
Statistics
Matches: 255, Mismatches: 26, Indels: 66
0.73 0.07 0.19
Matches are distributed among these distances:
29 5 0.02
30 4 0.02
31 10 0.04
32 2 0.01
33 3 0.01
34 12 0.05
35 23 0.09
36 38 0.15
37 65 0.25
38 39 0.15
39 10 0.04
40 10 0.04
41 13 0.05
42 19 0.07
43 2 0.01
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (35 bp):
ATATATATTTTCAAAAATGTTTTAAAAACTATATA
Found at i:23050 original size:70 final size:69
Alignment explanation
Indices: 22914--23050 Score: 163
Period size: 70 Copynumber: 2.0 Consensus size: 69
22904 AAAATTATAT
*
22914 TTTATATATGATTTTAAAAATGGTTTTCAAAACCATATAATATAATATATTTTCAAAAAAATATT
1 TTTATATATGATTTTAAAAATGGTTTTAAAAACCATATAATATAATATATTTTC-AAAAAATATT
22979 TTAAA
65 TTAAA
* * * *
22984 TTTATATAT-ATTTTCAAACATGTTTTTGAAAAACTATATAATATACA-ATTGTTTTC-AAAAAT
1 TTTATATATGATTTT-AAAAATGGTTTT-AAAAACCATATAATATA-ATA-TATTTTCAAAAAAT
23046 ATTTT
62 ATTTT
23051 TTCCAAAATA
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
69 5 0.09
70 30 0.52
71 16 0.28
72 7 0.12
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (69 bp):
TTTATATATGATTTTAAAAATGGTTTTAAAAACCATATAATATAATATATTTTCAAAAAATATTT
TAAA
Found at i:23202 original size:36 final size:36
Alignment explanation
Indices: 22985--23286 Score: 254
Period size: 37 Copynumber: 8.0 Consensus size: 36
22975 TATTTTAAAT
*
22985 TTATATATATTTTCAAACATGTTTTTGAAAAACTATATA
1 TTATATA-ATTTTCAAAAATG-TTTT-AAAAACTATATA
* * * *
23024 ATATACAATTGTTTTCAAAAATATTTTTTCCAAAA-TAATATA
1 TTATATAA---TTTTC-AAAA-ATGTTTT-AAAAACT-ATATA
*
23066 TTATATAAGTTTTC-AAAATGATTTAAAAAACTATATA
1 TTATATAA-TTTTCAAAAATG-TTTTAAAAACTATATA
*
23103 TTATATATATTTT-AAAAATGTTTTTAAAAATTATATA
1 TTATATA-ATTTTCAAAAATG-TTTTAAAAACTATATA
* *
23140 ATATATAATTTTTTAAAAATGTTTTAAAAACTATATA
1 TTATATAA-TTTTCAAAAATGTTTTAAAAACTATATA
*
23177 TTATATAATTTTCGAAAATGTTTTAAAAACTATATA
1 TTATATAATTTTCAAAAATGTTTTAAAAACTATATA
* *
23213 ATATAT-AGTTTCAAAAATGTTTT-AAAACTATATA
1 TTATATAATTTTCAAAAATGTTTTAAAAACTATATA
* ** **
23247 TCATATACATATTTTCAAAAATCATTTGTAAACTATATA
1 T--TATATA-ATTTTCAAAAATGTTTTAAAAACTATATA
23286 T
1 T
23287 AAATGTATAT
Statistics
Matches: 218, Mismatches: 28, Indels: 34
0.78 0.10 0.12
Matches are distributed among these distances:
34 11 0.05
35 15 0.07
36 36 0.17
37 74 0.34
38 30 0.14
39 16 0.07
40 6 0.03
41 6 0.03
42 22 0.10
43 2 0.01
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.44
Consensus pattern (36 bp):
TTATATAATTTTCAAAAATGTTTTAAAAACTATATA
Found at i:26174 original size:2 final size:2
Alignment explanation
Indices: 26167--26195 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
26157 TATGATCTTC
26167 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 T
26196 GGGATGAGAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:39086 original size:6 final size:6
Alignment explanation
Indices: 39075--39105 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
39065 TATATCTTCC
39075 CATCTT CATCTT CATCTT CATCTT CATCTT C
1 CATCTT CATCTT CATCTT CATCTT CATCTT C
39106 CTGGGTGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.35, G:0.00, T:0.48
Consensus pattern (6 bp):
CATCTT
Found at i:40813 original size:2 final size:2
Alignment explanation
Indices: 40806--40840 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
40796 AGTTCCATGC
40806 TA TA 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 TA TA T
40841 GACAGATGTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:44804 original size:31 final size:31
Alignment explanation
Indices: 44766--44872 Score: 83
Period size: 34 Copynumber: 3.3 Consensus size: 31
44756 TATATATATA
44766 TATATTATTGGAATTATAAGACATCAAATTT
1 TATATTATTGGAATTATAAGACATCAAATTT
** * *
44797 TATATTATCTAAAATATTTTAA-ATAT-ATATATATAT
1 TATATTAT-T-GGA-ATTATAAGACATCA-A-AT-T-T
44833 ATATATTATTGGAATTATAAGACATCAAATTT
1 -TATATTATTGGAATTATAAGACATCAAATTT
*
44865 TGTATTAT
1 TATATTAT
44873 CTAAAATATT
Statistics
Matches: 57, Mismatches: 9, Indels: 20
0.66 0.10 0.23
Matches are distributed among these distances:
31 15 0.26
32 3 0.05
33 6 0.11
34 16 0.28
35 6 0.11
36 3 0.05
37 8 0.14
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.46
Consensus pattern (31 bp):
TATATTATTGGAATTATAAGACATCAAATTT
Found at i:44895 original size:70 final size:68
Alignment explanation
Indices: 44754--44895 Score: 259
Period size: 68 Copynumber: 2.1 Consensus size: 68
44744 AAAATGTGTG
44754 TATATATATATATATATTATTGGAATTATAAGACATCAAATTTTATATTATCTAAAATATTTTAA
1 TATATATATATATATATTATTGGAATTATAAGACATCAAATTTTATATTATCTAAAATATTTTAA
44819 ATA
66 ATA
*
44822 TATATATATATATATATTATTGGAATTATAAGACATCAAATTTTGTATTATCTAAAATATTTTTA
1 TATATATATATATATATTATTGGAATTATAAGACATCAAATTTTATATTATCTAAAATA-TTTTA
44887 AA-A
65 AATA
44890 TATATA
1 TATATA
44896 ACAAAACAAA
Statistics
Matches: 72, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
68 65 0.90
69 7 0.10
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (68 bp):
TATATATATATATATATTATTGGAATTATAAGACATCAAATTTTATATTATCTAAAATATTTTAA
ATA
Found at i:61871 original size:24 final size:24
Alignment explanation
Indices: 61844--61937 Score: 82
Period size: 24 Copynumber: 3.7 Consensus size: 24
61834 TATATATAAG
*
61844 TTTTTAAAAACTATATATTATATA
1 TTTTCAAAAACTATATATTATATA
* * *
61868 TTTTCAAAATTA-TACATTTTTAAAAATAA
1 TTTTCAAAA--ACTATA-TATT--ATAT-A
61897 GTTTTCAAAAACTATATATTATATA
1 -TTTTCAAAAACTATATATTATATA
61922 TTTTCAAAAACTATAT
1 TTTTCAAAAACTATAT
61938 TTGAAATTAT
Statistics
Matches: 55, Mismatches: 7, Indels: 16
0.71 0.09 0.21
Matches are distributed among these distances:
24 24 0.44
25 4 0.07
26 7 0.13
28 7 0.13
29 4 0.07
30 9 0.16
ACGTcount: A:0.46, C:0.07, G:0.01, T:0.46
Consensus pattern (24 bp):
TTTTCAAAAACTATATATTATATA
Found at i:63936 original size:31 final size:31
Alignment explanation
Indices: 63898--63967 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 31
63888 TTAACGGACG
*
63898 AGGGACTAAAATCGAACGGATTGATAA-TGTT
1 AGGGACTAAAATCGAACGGATCGATAACT-TT
* *
63929 AGGGACTAAAATCGGATGGATCGATAACTTT
1 AGGGACTAAAATCGAACGGATCGATAACTTT
63960 AGGGACTA
1 AGGGACTA
63968 TTCTCCCTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
31 34 0.97
32 1 0.03
ACGTcount: A:0.37, C:0.11, G:0.27, T:0.24
Consensus pattern (31 bp):
AGGGACTAAAATCGAACGGATCGATAACTTT
Found at i:70647 original size:12 final size:12
Alignment explanation
Indices: 70630--70657 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
70620 AACGATCAAC
70630 GGTCAACGGTCG
1 GGTCAACGGTCG
70642 GGTCAACGGTCG
1 GGTCAACGGTCG
70654 GGTC
1 GGTC
70658 GGGTCAGACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.14, C:0.25, G:0.43, T:0.18
Consensus pattern (12 bp):
GGTCAACGGTCG
Found at i:70649 original size:19 final size:19
Alignment explanation
Indices: 70625--70673 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
70615 AGGTCAACGA
70625 TCAACGGTCAACGGTCGGG
1 TCAACGGTCAACGGTCGGG
*
70644 TCAACGGTC--GGGTCGGG
1 TCAACGGTCAACGGTCGGG
70661 TCAGACCGGTCAA
1 TCA-A-CGGTCAA
70674 ACCGGTTCAG
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
17 10 0.40
18 1 0.04
19 14 0.56
ACGTcount: A:0.20, C:0.27, G:0.37, T:0.16
Consensus pattern (19 bp):
TCAACGGTCAACGGTCGGG
Found at i:70683 original size:19 final size:19
Alignment explanation
Indices: 70661--70699 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
70651 TCGGGTCGGG
70661 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
* *
70680 TCAGGCCGGTCAAACTGGT
1 TCAGACCGGTCAAACCGGT
70699 T
1 T
70700 TTTCCAGCTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.23, C:0.28, G:0.28, T:0.21
Consensus pattern (19 bp):
TCAGACCGGTCAAACCGGT
Found at i:73523 original size:17 final size:17
Alignment explanation
Indices: 73501--73550 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
73491 GTTATTTTGG
73501 AATACTTTGGTAAATTT
1 AATACTTTGGTAAATTT
*
73518 AATAC--TGGT--TTTAT
1 AATACTTTGGTAAATT-T
73532 AATACTTTGGTAAATTT
1 AATACTTTGGTAAATTT
73549 AA
1 AA
73551 GGATTAAGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 10
0.68 0.05 0.26
Matches are distributed among these distances:
13 2 0.08
14 6 0.23
15 4 0.15
16 4 0.15
17 8 0.31
18 2 0.08
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.46
Consensus pattern (17 bp):
AATACTTTGGTAAATTT
Found at i:74121 original size:76 final size:76
Alignment explanation
Indices: 73986--74140 Score: 267
Period size: 76 Copynumber: 2.0 Consensus size: 76
73976 TAATTAAATT
* *
73986 TATTTTAATATTAAAAGTATGAGTAAATTAAGAGAATATATAAATAACAGGAACTAAATATATTA
1 TATTTTAATATTAAAAGTATGAGTAAATTAAGAGAATATATAAATAACAGGAACCAAATATATGA
74051 TTATACCAAAA
66 TTATACCAAAA
*
74062 TATTTTAATATTAAAAGTATGAGTAAATTAAGAGAATATATAAATAACATGG-ACCAAATATCTG
1 TATTTTAATATTAAAAGTATGAGTAAATTAAGAGAATATATAAATAACA-GGAACCAAATATATG
74126 ATTATACCAAAA
65 ATTATACCAAAA
74138 TAT
1 TAT
74141 CATGTCACCT
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
76 73 0.97
77 2 0.03
ACGTcount: A:0.51, C:0.06, G:0.10, T:0.33
Consensus pattern (76 bp):
TATTTTAATATTAAAAGTATGAGTAAATTAAGAGAATATATAAATAACAGGAACCAAATATATGA
TTATACCAAAA
Found at i:74251 original size:31 final size:31
Alignment explanation
Indices: 74192--74251 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
74182 TTGTGATCAC
* *
74192 ATCTTAATTAAATAAAAACGAAAGTGACTGT
1 ATCTTAATTAAATAAAAACAAAAATGACTGT
* *
74223 ATCTTAATTAAATATAAATAAAAATGACT
1 ATCTTAATTAAATAAAAACAAAAATGACT
74252 ATATATTATG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (31 bp):
ATCTTAATTAAATAAAAACAAAAATGACTGT
Found at i:90358 original size:3 final size:3
Alignment explanation
Indices: 90350--90377 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
90340 CTACACCAAT
90350 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
90378 AACCATACGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:91826 original size:14 final size:14
Alignment explanation
Indices: 91804--91851 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
91794 TAAGTTAGAG
*
91804 TTTAAGATTTATGT
1 TTTAGGATTTATGT
91818 TTTAGGATTTATGT
1 TTTAGGATTTATGT
* * *
91832 TTTATGATTGATGA
1 TTTAGGATTTATGT
91846 TTTAGG
1 TTTAGG
91852 GTTTTAAATT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.25, C:0.00, G:0.21, T:0.54
Consensus pattern (14 bp):
TTTAGGATTTATGT
Found at i:92062 original size:25 final size:26
Alignment explanation
Indices: 92033--92081 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
92023 ATCATATATA
*
92033 TATATATTAAA-ATAAATAAAATTCG
1 TATATAATAAATATAAATAAAATTCG
*
92058 TATATAATAAATATACATAAAATT
1 TATATAATAAATATAAATAAAATT
92082 TCAACGTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (26 bp):
TATATAATAAATATAAATAAAATTCG
Found at i:92728 original size:19 final size:19
Alignment explanation
Indices: 92701--92738 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
92691 TTATGAGATC
92701 ATAAATAAAATTATA-AAAA
1 ATAAAT-AAATTATATAAAA
*
92720 ATAATTAAATTATATAAAA
1 ATAAATAAATTATATAAAA
92739 CTTTCAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
ATAAATAAATTATATAAAA
Found at i:97049 original size:20 final size:20
Alignment explanation
Indices: 96955--97343 Score: 498
Period size: 20 Copynumber: 19.4 Consensus size: 20
96945 GATTTTCCAT
* ** *
96955 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
96975 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
96995 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
97015 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
97035 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
97055 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
97075 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
97095 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
97115 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
97135 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
97155 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
97175 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
97195 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
97215 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
97235 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
97255 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
97275 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
97295 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
97315 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
97335 AATCACAAC
1 AATCGCAAC
97344 ACTGAAATTT
Statistics
Matches: 325, Mismatches: 36, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
19 3 0.01
20 319 0.98
21 3 0.01
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:98056 original size:24 final size:24
Alignment explanation
Indices: 98017--98063 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
98007 AAATTTGGTC
98017 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
98041 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
98064 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:98255 original size:12 final size:12
Alignment explanation
Indices: 98238--98262 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
98228 ATATAATCCT
98238 GAAGAAGAAAAA
1 GAAGAAGAAAAA
98250 GAAGAAGAAAAA
1 GAAGAAGAAAAA
98262 G
1 G
98263 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:100591 original size:19 final size:19
Alignment explanation
Indices: 100569--100856 Score: 320
Period size: 19 Copynumber: 16.4 Consensus size: 19
100559 CGGAAAATAC
*
100569 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
100588 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
100602 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
100622 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
100636 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
100655 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
100674 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
100688 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
100707 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
* *
100726 AATCG-AA-CCGACAT---
1 AATCGCAATGCGAAATGAA
*
100740 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
100759 AATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAA
100778 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
100797 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
100816 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
100830 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
100849 AATCGCAA
1 AATCGCAA
100857 CGAGATAATC
Statistics
Matches: 230, Mismatches: 13, Indels: 52
0.78 0.04 0.18
Matches are distributed among these distances:
14 45 0.20
15 4 0.02
16 16 0.07
17 15 0.07
18 5 0.02
19 132 0.57
20 13 0.06
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:100656 original size:33 final size:34
Alignment explanation
Indices: 100569--100823 Score: 222
Period size: 33 Copynumber: 7.2 Consensus size: 34
100559 CGGAAAATAC
* *
100569 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
*
100602 AATCGCAATGCGGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGC-GAAATGAAAATCGCAACGATGAA
100636 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
*
100674 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
* *
100707 AATCGCAATGCGAAATGAAAATCG-AACCGA-CAT
1 AATCGCAATGCGAAATGAAAATCGCAA-CGATGAA
*
100740 AATCGCAATGCGAAATTAAAATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGC-A-ACG--ATGAA
100778 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
100816 AATCGCAA
1 AATCGCAA
100824 CGAAAGAATC
Statistics
Matches: 189, Mismatches: 13, Indels: 35
0.80 0.05 0.15
Matches are distributed among these distances:
33 79 0.42
34 31 0.16
35 8 0.04
36 6 0.03
37 6 0.03
38 59 0.31
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (34 bp):
AATCGCAATGCGAAATGAAAATCGCAACGATGAA
Found at i:100684 original size:52 final size:53
Alignment explanation
Indices: 100597--100823 Score: 334
Period size: 52 Copynumber: 4.2 Consensus size: 53
100587 AAATCCCAAC
100597 ATGAAAATCGCAATGCGGAAATGAAAATCGCAA-CGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACCGAGAGAATCGCAATGCGAA
100650 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-CGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACCGAGAGAATCGCAATGCGAA
* *
100702 ATGAAAATCGCAATGCGAAATGAAAATCG-AACCGACATAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACCGAGAGAATCGCAATGCGAA
* * * *
100754 ATTAAAATCGCAATACGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-CCG--A-GAGAATCGCAATGCGAA
100811 ATGAAAATCGCAA
1 ATGAAAATCGCAA
100824 CGAAAGAATC
Statistics
Matches: 160, Mismatches: 8, Indels: 8
0.91 0.05 0.05
Matches are distributed among these distances:
51 2 0.01
52 110 0.69
53 18 0.11
54 2 0.01
56 1 0.01
57 27 0.17
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (53 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACCGAGAGAATCGCAATGCGAA
Found at i:100781 original size:123 final size:122
Alignment explanation
Indices: 100636--100888 Score: 365
Period size: 123 Copynumber: 2.1 Consensus size: 122
100626 GCAACGAGAG
* *
100636 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-CG-A-GAGAATCGCAATG
1 AATCGCAATACGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAATGAAAATCGCAA--
100698 CGAAATGAAAATCGCAATGCGAAATGAAAATCG-AACCGACATAATCGCAATGCGAAATTA-A
64 CGAAA-G--AATCGCAATGCGAAATGAAAATCGCAA-CGACATAATCGCAATGCGAAATTATA
100759 AATCGCAATACGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATACGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCG-AATGAAAATCGCAA
*
100824 CGAAAGAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAAATTATA
64 CGAAAGAATCGCAATGCGAAATGAAAATCGCAACGACATAATCGCAATGCGAAATTATA
100883 AA-CGCA
1 AATCGCA
100889 TTGCGATTTT
Statistics
Matches: 120, Mismatches: 3, Indels: 14
0.88 0.02 0.10
Matches are distributed among these distances:
123 96 0.80
124 5 0.04
125 3 0.03
126 5 0.04
127 1 0.01
128 10 0.08
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (122 bp):
AATCGCAATACGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAATGAAAATCGCAACG
AAAGAATCGCAATGCGAAATGAAAATCGCAACGACATAATCGCAATGCGAAATTATA
Found at i:100834 original size:33 final size:34
Alignment explanation
Indices: 100636--100878 Score: 223
Period size: 33 Copynumber: 6.9 Consensus size: 34
100626 GCAACGAGAG
100636 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA-GCGAAA-G--AATCGCAATGCGAAATGAA
*
100674 AATCGCAA-CGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAAGCGAAAGAATCGCAATGCGAAATGAA
**
100707 AATCGCAATGCGAAATGAA----AAT-CGAACCGACA
1 AATCGCAA-GCGAAA-GAATCGCAATGCGAAATGA-A
* *
100739 TAATCGCAATGCGAAATTAAAATCGCAATACGAAATGAA
1 -AATCGCAA-GCG-AA--AGAATCGCAATGCGAAATGAA
100778 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA-GCGAAA-G--AATCGCAATGCGAAATGAA
100816 AATCGCAA-CGAAAGAATCGCAATGCGAAATGAA
1 AATCGCAAGCGAAAGAATCGCAATGCGAAATGAA
* *
100849 AATCGCAA-CGAGATAATCGCAATGCGAAAT
1 AATCGCAAGCGAAAGAATCGCAATGCGAAAT
100879 TATAAACGCA
Statistics
Matches: 178, Mismatches: 11, Indels: 37
0.79 0.05 0.16
Matches are distributed among these distances:
31 6 0.03
32 4 0.02
33 86 0.48
34 2 0.01
35 9 0.05
36 13 0.07
37 2 0.01
38 46 0.26
39 4 0.02
40 6 0.03
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (34 bp):
AATCGCAAGCGAAAGAATCGCAATGCGAAATGAA
Found at i:100855 original size:52 final size:54
Alignment explanation
Indices: 100597--100856 Score: 262
Period size: 52 Copynumber: 4.9 Consensus size: 54
100587 AAATCCCAAC
*
100597 ATGAAAATCGCAATGCGGAAATGAAAATCGCAA-CG--A-GAGAATCGCAATGCGAA
1 ATGAAAATCGCAA-GC-GAAATG-AAATCGCAATCGAAATGAAAATCGCAATGCGAA
*
100650 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-CG--A-GAGAATCGCAATGCGAA
1 ATGAAAATCGCAA-GCGAAATG-AAATCGCAATCGAAATGAAAATCGCAATGCGAA
* *
100702 ATGAAAATCGCAATGCGAAATGAAAATCG-AACCGACAT---AATCGCAATGCGAA
1 ATGAAAATCGCAA-GCGAAATG-AAATCGCAATCGAAATGAAAATCGCAATGCGAA
* *
100754 ATTAAAATCGCAATACGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAA-GCGAAATG-AAATCGCAAT-CGAAATGAAAATCGCAATGCGAA
100811 ATGAAAATCGCAA-CGAAA-G-AATCGCAATGCGAAATGAAAATCGCAA
1 ATGAAAATCGCAAGCGAAATGAAATCGCAAT-CGAAATGAAAATCGCAA
100857 CGAGATAATC
Statistics
Matches: 193, Mismatches: 5, Indels: 19
0.89 0.02 0.09
Matches are distributed among these distances:
51 2 0.01
52 135 0.70
53 18 0.09
54 7 0.04
55 5 0.03
57 26 0.13
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (54 bp):
ATGAAAATCGCAAGCGAAATGAAATCGCAATCGAAATGAAAATCGCAATGCGAA
Found at i:100994 original size:19 final size:19
Alignment explanation
Indices: 100885--100986 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
100875 AAATTATAAA
100885 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
100904 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
100924 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
100940 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
100957 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
100976 CGCATTGCGAT
1 CGCATTGCGAT
100987 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:101112 original size:14 final size:14
Alignment explanation
Indices: 101093--101129 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
101083 CATCAATTAC
101093 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
101107 ACAAATCATCTTTT
1 ACAAATCAACTTTT
101121 ACAAATCAA
1 ACAAATCAA
101130 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:101157 original size:37 final size:37
Alignment explanation
Indices: 101110--101180 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
101100 AACTTTTACA
*
101110 AATCATCTTTTACAAATCAATTAAACAATCAAAATTG
1 AATCAACTTTTACAAATCAATTAAACAATCAAAATTG
101147 AATCAACTTTTACAAATCAATTAAACAATCAAAA
1 AATCAACTTTTACAAATCAATTAAACAATCAAAA
101181 AACAATCAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.52, C:0.17, G:0.01, T:0.30
Consensus pattern (37 bp):
AATCAACTTTTACAAATCAATTAAACAATCAAAATTG
Found at i:101188 original size:37 final size:37
Alignment explanation
Indices: 101110--101189 Score: 124
Period size: 37 Copynumber: 2.2 Consensus size: 37
101100 AACTTTTACA
* ***
101110 AATCATCTTTTACAAATCAATTAAACAATCAAAATTG
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAAAC
101147 AATCAACTTTTACAAATCAATTAAACAATCAAAAAAC
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAAAC
101184 AATCAA
1 AATCAA
101190 TTAAACTATT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.54, C:0.17, G:0.01, T:0.28
Consensus pattern (37 bp):
AATCAACTTTTACAAATCAATTAAACAATCAAAAAAC
Found at i:103072 original size:14 final size:14
Alignment explanation
Indices: 103053--103109 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
103043 GCGAAATGAA
*
103053 AATCGCAACGACAG
1 AATCGCAACGAAAG
103067 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
103084 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
103100 AATCGCAACG
1 AATCGCAACG
103110 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:103080 original size:33 final size:33
Alignment explanation
Indices: 103034--103126 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
103024 GCGAAACCAA
*
103034 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
103067 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
103100 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
103127 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:103091 original size:19 final size:19
Alignment explanation
Indices: 102997--103131 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
102987 TAGTTTACTT
* *
102997 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
103017 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
103036 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
103055 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
103069 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
103088 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
103102 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
103121 TCGCAATGCGA
1 TCGCAACGCGA
103132 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:103149 original size:19 final size:19
Alignment explanation
Indices: 103127--103255 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
103117 AAAATCGCAA
103127 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
103146 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
103160 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
103179 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
103193 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
103212 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
103231 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
103251 TGCGA
1 TGCGA
103256 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:103169 original size:33 final size:33
Alignment explanation
Indices: 103127--103218 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
103117 AAAATCGCAA
103127 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
103160 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
103193 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
103219 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:103458 original size:93 final size:93
Alignment explanation
Indices: 103299--103678 Score: 753
Period size: 93 Copynumber: 4.1 Consensus size: 93
103289 TTGAATGGAT
103299 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
103364 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
103392 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
103457 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
103485 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
103549 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
103577 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
103642 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
103670 AAATTTACT
1 AAATTTACT
103679 AAGCAATCTA
Statistics
Matches: 286, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
92 92 0.32
93 194 0.68
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:103612 original size:185 final size:186
Alignment explanation
Indices: 103299--103678 Score: 753
Period size: 185 Copynumber: 2.0 Consensus size: 186
103289 TTGAATGGAT
103299 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
103364 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
103429 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
103485 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
103549 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
103614 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
103670 AAATTTACT
1 AAATTTACT
103679 AAGCAATCTA
Statistics
Matches: 194, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
185 155 0.80
186 39 0.20
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (186 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:104262 original size:19 final size:19
Alignment explanation
Indices: 104246--104347 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
104236 AAAAATGACT
104246 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
104265 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
104284 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
104298 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
104317 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
104337 ATCGCAATGCG
1 ATCGCAATGCG
104348 TTTATAATTT
Statistics
Matches: 75, Mismatches: 2, Indels: 12
0.84 0.02 0.13
Matches are distributed among these distances:
14 10 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 40 0.53
20 19 0.25
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:104400 original size:19 final size:19
Alignment explanation
Indices: 104376--104682 Score: 358
Period size: 19 Copynumber: 17.4 Consensus size: 19
104366 GATTATCTCG
104376 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
104395 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
104414 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
104428 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
104447 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
104466 TTGCGATTTTCATTTCGTA
1 TTGCGATTTTCATTTCGCA
*
104485 TTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
* *
104504 TTGCGA--TT-ATGTCG-G
1 TTGCGATTTTCATTTCGCA
104519 TT-CGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
104537 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
104556 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
104570 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
104589 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
104608 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
104622 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
104642 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
104656 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
104675 TTGCGATT
1 TTGCGATT
104683 GTATTTTCCG
Statistics
Matches: 249, Mismatches: 13, Indels: 52
0.79 0.04 0.17
Matches are distributed among these distances:
14 32 0.13
15 2 0.01
16 31 0.12
17 28 0.11
18 5 0.02
19 139 0.56
20 12 0.05
ACGTcount: A:0.14, C:0.20, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:104451 original size:71 final size:71
Alignment explanation
Indices: 104376--104615 Score: 355
Period size: 71 Copynumber: 3.4 Consensus size: 71
104366 GATTATCTCG
104376 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
104441 TTCGCA
66 TTCGCA
* *
104447 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGTATTGCGATTTTAATTTCGCATTGCGA--
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TT-CTTTCG--TTGCGATT
* *
104510 TT-ATGTCG-G
61 TTCATTTCGCA
*
104519 TT-CGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCAT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
104583 TTCGCA
66 TTCGCA
104589 TTGCGATTTTCATTTCGCATTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATT
104616 CTCTCGTTGC
Statistics
Matches: 150, Mismatches: 9, Indels: 20
0.84 0.05 0.11
Matches are distributed among these distances:
66 6 0.04
68 6 0.04
69 7 0.05
70 2 0.01
71 107 0.71
72 2 0.01
73 7 0.05
74 7 0.05
76 6 0.04
ACGTcount: A:0.15, C:0.20, G:0.17, T:0.47
Consensus pattern (71 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
TTCGCA
Found at i:104535 original size:142 final size:136
Alignment explanation
Indices: 104344--104682 Score: 504
Period size: 142 Copynumber: 2.4 Consensus size: 136
104334 AAAATCGCAA
104344 TGCG-TTTATAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCAT
1 TGCGATTT-TAATTTCGCATTGCGATTAT-TCGTTGCGATTTTCATTTCGCATTGCGATTTTCAT
*
104408 TTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGAT
64 TTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA-
*
104473 TTTCATTTCGTAT
128 -TTC-TCTCG--T
104486 TGCGATTTTAATTTCGCATTGCGATTATGTCGGTT-CGATTTTCATTTCGCATTGCGATTTTCAT
1 TGCGATTTTAATTTCGCATTGCGATTAT-TC-GTTGCGATTTTCATTTCGCATTGCGATTTTCAT
104550 TTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGAT
64 TTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGAT
104615 TCTCTCGT
129 TCTCTCGT
* * *
104623 TGCGATTTTCATTTCCGCATTGCGATT-TTCATGTTGGGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTAATTT-CGCATTGCGATTATTC--GTTGCGATTTTCATTTCGCATTGCGATT
104683 GTATTTTCCG
Statistics
Matches: 185, Mismatches: 7, Indels: 14
0.90 0.03 0.07
Matches are distributed among these distances:
136 2 0.01
137 18 0.10
138 34 0.18
139 4 0.02
140 3 0.02
142 118 0.64
143 6 0.03
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.47
Consensus pattern (136 bp):
TGCGATTTTAATTTCGCATTGCGATTATTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTT
CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTC
TCTCGT
Found at i:104621 original size:52 final size:52
Alignment explanation
Indices: 104376--104654 Score: 354
Period size: 52 Copynumber: 5.2 Consensus size: 52
104366 GATTATCTCG
*
104376 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCA
* *
104428 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGTA
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCA
* * *
104485 TTGCGATTTTAATTTCGCATTGCGATTATGTCGGTT-CGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTC-GTTGCGATTTTCATTTCGCA
104537 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
104589 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCA
104642 TTGCGATTTTCAT
1 TTGCGATTTTCAT
104655 GTTGGGATTT
Statistics
Matches: 212, Mismatches: 7, Indels: 15
0.91 0.03 0.06
Matches are distributed among these distances:
51 3 0.01
52 152 0.72
53 19 0.09
54 6 0.03
55 8 0.04
57 24 0.11
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (52 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
Found at i:107002 original size:12 final size:12
Alignment explanation
Indices: 106985--107009 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
106975 TCTTCGGGGA
106985 CTTTTTCTTCTT
1 CTTTTTCTTCTT
106997 CTTTTTCTTCTT
1 CTTTTTCTTCTT
107009 C
1 C
107010 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:107218 original size:24 final size:24
Alignment explanation
Indices: 107184--107230 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
107174 CTGAAACATC
107184 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
107208 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
107231 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:107932 original size:20 final size:20
Alignment explanation
Indices: 107904--108272 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
107894 AAATTTCAGT
* * * *
107904 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
107924 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
107944 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
107964 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
107984 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
108004 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
108024 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
108044 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
108064 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
108084 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
*
108104 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATACGC
108124 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
108144 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
108164 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
108184 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
108204 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
108224 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
108244 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
108264 GTTGCGATT
1 GTTGCGATT
108273 ATGGAAAATC
Statistics
Matches: 309, Mismatches: 32, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.02
20 299 0.97
21 5 0.02
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:114009 original size:14 final size:14
Alignment explanation
Indices: 113961--114011 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
113951 TAAATTATCT
*
113961 ATATAGTAATTTAA
1 ATATAATAATTTAA
*
113975 GTAT-ATAATTT-A
1 ATATAATAATTTAA
*
113987 ATCTAAATAATTTAA
1 ATAT-AATAATTTAA
114002 ATATAATAAT
1 ATATAATAAT
114012 AGAAATATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
12 3 0.10
13 6 0.21
14 16 0.55
15 4 0.14
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (14 bp):
ATATAATAATTTAA
Found at i:127884 original size:29 final size:29
Alignment explanation
Indices: 127829--127885 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 29
127819 TCATTCAAAA
* *
127829 AATAGTTTAAACATCTATTCTTAAAAAGT
1 AATAATTTAAACATCTATTCGTAAAAAGT
127858 AATAATTTAAACA-CTTATTCGTGAAAAA
1 AATAATTTAAACATC-TATTCGT-AAAAA
127886 ACGTTAATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 1 0.04
29 18 0.75
30 5 0.21
ACGTcount: A:0.47, C:0.11, G:0.07, T:0.35
Consensus pattern (29 bp):
AATAATTTAAACATCTATTCGTAAAAAGT
Found at i:130784 original size:20 final size:20
Alignment explanation
Indices: 130761--130799 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
130751 TTAAATTATG
*
130761 AAATTATTGATATAATAGTT
1 AAATAATTGATATAATAGTT
*
130781 AAATAATTTATATAATAGT
1 AAATAATTGATATAATAGT
130800 AATTTGGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.44
Consensus pattern (20 bp):
AAATAATTGATATAATAGTT
Found at i:134002 original size:20 final size:21
Alignment explanation
Indices: 133977--134026 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 21
133967 ACTAAGGTAG
*
133977 GGTTTAGGGTTAAAGA-TTAT
1 GGTTTAGGGTCAAAGAGTTAT
*
133997 GGTTTAGAGGTCATAGAGTTAT
1 GGTTTAG-GGTCAAAGAGTTAT
*
134019 GATTTAGG
1 GGTTTAGG
134027 ATTTAGGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 7 0.28
21 8 0.32
22 10 0.40
ACGTcount: A:0.28, C:0.02, G:0.32, T:0.38
Consensus pattern (21 bp):
GGTTTAGGGTCAAAGAGTTAT
Found at i:136424 original size:53 final size:52
Alignment explanation
Indices: 136307--136414 Score: 173
Period size: 53 Copynumber: 2.1 Consensus size: 52
136297 AAATTTAAGC
*
136307 TCGAGACATTACTT-AAGTGATATCAATCATTTATCACTTGAATCAACCCATA
1 TCGAGACATT-GTTCAAGTGATATCAATCATTTATCACTTGAATCAACCCATA
*
136359 TCGAGATATTGTTCAAGTGATATCAATCTATTTATCACTTGAATCAACCCATA
1 TCGAGACATTGTTCAAGTGATATCAATC-ATTTATCACTTGAATCAACCCATA
136412 TCG
1 TCG
136415 TAACGTTGTT
Statistics
Matches: 52, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
51 2 0.04
52 23 0.44
53 27 0.52
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.34
Consensus pattern (52 bp):
TCGAGACATTGTTCAAGTGATATCAATCATTTATCACTTGAATCAACCCATA
Found at i:136630 original size:2 final size:2
Alignment explanation
Indices: 136620--136719 Score: 142
Period size: 2 Copynumber: 53.5 Consensus size: 2
136610 AAAGGTAAAA
*
136620 AG AG CG AG AG AG AG AG AG AG AG AG AG AG AG -G AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
136661 AG AG AG AG A- AG AG AG -G AG AG AG A- AG -G AG AG AG AG AG -G
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
136698 AG AG -G AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG A
136720 ACAGATTCGA
Statistics
Matches: 89, Mismatches: 2, Indels: 14
0.85 0.02 0.13
Matches are distributed among these distances:
1 7 0.08
2 82 0.92
ACGTcount: A:0.48, C:0.01, G:0.51, T:0.00
Consensus pattern (2 bp):
AG
Found at i:137312 original size:31 final size:31
Alignment explanation
Indices: 137281--137379 Score: 130
Period size: 31 Copynumber: 3.2 Consensus size: 31
137271 GATAACATGA
*
137281 CAGATGAGTTAAATTAGTAACTCAAACAT-G
1 CAGATGAGTTAAATTGGTAACTCAAACATAG
* * *
137311 ACAG-TGAATTAAATTGGCAACTCAAATATAG
1 -CAGATGAGTTAAATTGGTAACTCAAACATAG
*
137342 CAGATGAGTTAAATTGGTACCTCAAACATAG
1 CAGATGAGTTAAATTGGTAACTCAAACATAG
137373 CAGATGA
1 CAGATGA
137380 AGCCACCTAT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
30 24 0.41
31 34 0.59
ACGTcount: A:0.42, C:0.14, G:0.18, T:0.25
Consensus pattern (31 bp):
CAGATGAGTTAAATTGGTAACTCAAACATAG
Done.