Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005984.1 Hibiscus syriacus cultivar Beakdansim tig00014065_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: 92282
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.33
Found at i:2101 original size:82 final size:83
Alignment explanation
Indices: 1843--2421 Score: 425
Period size: 83 Copynumber: 7.0 Consensus size: 83
1833 GAAGAAGAGA
* * * * * * ***
1843 AAGAAGGCAGATGAAGAAAGAAAACTTGTTGATTTAGAAATGGCTAAAGCAAG-GGAGTTGAGGA
1 AAGAAGGCTGTTGAAGAAAGAAAACATGCTGATTTAGAGATGGCTAAAGC-AGCAGA-ACAAGGA
*
1907 AGATTGCAGAAGAAACTAAG
64 AGATTGCTGAAGAAACTAAG
* * * * ** * * *
1927 AAAAAGGCT-TGGACGATAGAAAATGTGCTGATTCAGAGATGGCTAAAGC-GGAGAAGCAGATGA
1 AAGAAGGCTGTTGAAGAAAGAAAACATGCTGATTTAGAGATGGCTAAAGCAGCAGAA-CA-AGGA
* *
1990 AGGTTGCTAAAGAAACTAAG
64 AGATTGCTGAAGAAACTAAG
** *
2010 AAGAAGGCTGCCGAAGAAAGAAAAC-TGCTGATTTAGAGATGGCTGAAGCAGCAGAACAAGGAAG
1 AAGAAGGCTGTTGAAGAAAGAAAACATGCTGATTTAGAGATGGCTAAAGCAGCAGAACAAGGAAG
*
2074 ATTGCTGAAGAAAAC-ATG
66 ATTGCTGAAG-AAACTAAG
* * * * *
2092 AAGAAGGCTGTTGAAGTAAGAAAACAAGCTGAGTT-GAGATGGCTAAGGCAG-AGCA-AAGGAAG
1 AAGAAGGCTGTTGAAGAAAGAAAACATGCTGATTTAGAGATGGCTAAAGCAGCAGAACAAGGAAG
2154 ATTGCTGAAGAAACTAAG
66 ATTGCTGAAGAAACTAAG
* * * ** * * *
2172 AAAAAGGCTGTTGACGAAAGGAAATGTGCCGATTCAGAGATGGCTAAAGCAG-AGAAGCAGAAGA
1 AAGAAGGCTGTTGAAGAAAGAAAACATGCTGATTTAGAGATGGCTAAAGCAGCAGAA-CA-AGGA
*
2236 AGGTTGCT-ACAGAAACTAAG
64 AGATTGCTGA-AGAAACTAAG
* * * * **
2256 AAG-AGGCCGTTGAA-AAAGAAAACATGCTGATTTAGAGATGGC-GAAGCAGCGGAGCAAACTAA
1 AAGAAGGCTGTTGAAGAAAGAAAACATGCTGATTTAGAGATGGCTAAAGCAGCAGAAC-AAGGAA
*
2318 GATTGCTGAAGAAAAC-ATG
65 GATTGCTGAAG-AAACTAAG
* * * * * * * * *
2337 ACGAAGGCTGTTGAAGTAAGACAACAAGCTGAGCTT-GCGATGGCTAAGGCAG-AGGAGCAAAGA
1 AAGAAGGCTGTTGAAGAAAGAAAACATGCTGA-TTTAGAGATGGCTAAAGCAGCA-GAACAAGGA
* *
2400 GGATTGCAGAAGAAACTAAG
64 AGATTGCTGAAGAAACTAAG
2420 AA
1 AA
2422 AGTTGTTGAA
Statistics
Matches: 386, Mismatches: 86, Indels: 47
0.74 0.17 0.09
Matches are distributed among these distances:
79 4 0.01
80 44 0.11
81 44 0.11
82 98 0.25
83 141 0.37
84 55 0.14
ACGTcount: A:0.42, C:0.12, G:0.30, T:0.16
Consensus pattern (83 bp):
AAGAAGGCTGTTGAAGAAAGAAAACATGCTGATTTAGAGATGGCTAAAGCAGCAGAACAAGGAAG
ATTGCTGAAGAAACTAAG
Found at i:2277 original size:162 final size:164
Alignment explanation
Indices: 1988--2331 Score: 387
Period size: 162 Copynumber: 2.1 Consensus size: 164
1978 AGAAGCAGAT
* * * * *
1988 GAAGGTTGCTAAAGAAACTAAGAAGAAGGCTGCCGAAGAAAGAAAACTGCTGATTTAGAGATGGC
1 GAAGATTGCTGAAGAAACTAAGAAAAAGGCTGCCGAAGAAAGAAAACTGCCGATTCAGAGATGGC
* * * * *
2053 TGAAGCAGCAGAACAAGGAAGATTGCTGAAGAAAACATGAAGAAGGCTGTTGAAGTAAGAAAACA
66 TAAAGCAGCAGAACAAAGAAGATTGCTGAAGAAAACAAGAAGAAGGCCGTTGAAGAAAGAAAACA
* *
2118 AGCTGAGTT-GAGATGGCTAAG-GCAGAGCAAAG
131 AGCTGAGTTAGAGATGGCGAAGAGCAGAGCAAAC
** * **
2150 GAAGATTGCTGAAGAAACTAAGAAAAAGGCTGTTGACGAAAGGAAATGTGCCGATTCAGAGATGG
1 GAAGATTGCTGAAGAAACTAAGAAAAAGGCTGCCGAAGAAA-GAAAACTGCCGATTCAGAGATGG
*
2215 CTAAAGCAG-AGAAGCAGAAGAAGGTTGCT-ACAG-AAACTAAGAAG-AGGCCGTTGAA-AAAGA
65 CTAAAGCAGCAGAA-CA-AAGAAGATTGCTGA-AGAAAAC-AAGAAGAAGGCCGTTGAAGAAAGA
* * *
2275 AAACATGCTGATTTAGAGATGGCGAAGCAGCGGAGCAAAC
126 AAACAAGCTGAGTTAGAGATGGCGAAG-AGCAGAGCAAAC
*
2315 TAAGATTGCTGAAGAAA
1 GAAGATTGCTGAAGAAA
2332 ACATGACGAA
Statistics
Matches: 152, Mismatches: 22, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
162 55 0.36
163 55 0.36
164 17 0.11
165 25 0.16
ACGTcount: A:0.42, C:0.12, G:0.30, T:0.16
Consensus pattern (164 bp):
GAAGATTGCTGAAGAAACTAAGAAAAAGGCTGCCGAAGAAAGAAAACTGCCGATTCAGAGATGGC
TAAAGCAGCAGAACAAAGAAGATTGCTGAAGAAAACAAGAAGAAGGCCGTTGAAGAAAGAAAACA
AGCTGAGTTAGAGATGGCGAAGAGCAGAGCAAAC
Found at i:2333 original size:245 final size:248
Alignment explanation
Indices: 1903--2422 Score: 784
Period size: 245 Copynumber: 2.1 Consensus size: 248
1893 AAGGGAGTTG
* *
1903 AGGAAGATTGCAGAAGAAACTAAGAAAAAGGCTTGGACGATAGAAAATGTGCTGATTCAGAGATG
1 AGGAAGATTGCAGAAGAAACTAAGAAAAAGGCTTGGACGAAAGAAAATGTGCCGATTCAGAGATG
* * *
1968 GCTAAAGCGGAGAAGCAGATGAAGGTTGCTAAAGAAACTAAGAAGAAGGCTGCCGAAGAAAGAAA
66 GCTAAAGCAGAGAAGCAGAAGAAGGTTGCTAAAGAAACTAAGAAGAAGGCCGCCGAAGAAAGAAA
*
2033 ACTGCTGATTTAGAGATGGCTGAAGCAGCAGAACAAGGAAGATTGCTGAAGAAAACATGAAGAAG
131 ACTGCTGATTTAGAGATGGCTGAAGCAGCAGAACAACGAAGATTGCTGAAGAAAACATGAAGAAG
2098 GCTGTTGAAGTAAGAAAACAAGCTGAG-TTGAGATGGCTAAGGC-A-GAGCAA
196 GCTGTTGAAGTAAGAAAACAAGCTGAGCTTGAGATGGCTAAGGCAAGGAGCAA
* * *
2148 AGGAAGATTGCTGAAGAAACTAAGAAAAAGGCTGTTGACGAAAGGAAATGTGCCGATTCAGAGAT
1 AGGAAGATTGCAGAAGAAACTAAGAAAAAGGCT-TGGACGAAAGAAAATGTGCCGATTCAGAGAT
* **
2213 GGCTAAAGCAGAGAAGCAGAAGAAGGTTGCTACAGAAACTAAGAAG-AGGCCGTTGAA-AAAGAA
65 GGCTAAAGCAGAGAAGCAGAAGAAGGTTGCTAAAGAAACTAAGAAGAAGGCCGCCGAAGAAAGAA
* * * *
2276 AACATGCTGATTTAGAGATGGC-GAAGCAGCGGAGCAAACTAAGATTGCTGAAGAAAACATGACG
130 AAC-TGCTGATTTAGAGATGGCTGAAGCAGCAGAAC-AACGAAGATTGCTGAAGAAAACATGAAG
* *
2340 AAGGCTGTTGAAGTAAGACAACAAGCTGAGCTTGCGATGGCTAAGGCAGAGGAGCAA
193 AAGGCTGTTGAAGTAAGAAAACAAGCTGAGCTTGAGATGGCTAAGGCA-AGGAGCAA
*
2397 A-GAGGATTGCAGAAGAAACTAAGAAA
1 AGGAAGATTGCAGAAGAAACTAAGAAA
2423 GTTGTTGAAG
Statistics
Matches: 248, Mismatches: 20, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
244 20 0.08
245 112 0.45
246 85 0.34
248 24 0.10
249 7 0.03
ACGTcount: A:0.42, C:0.12, G:0.30, T:0.16
Consensus pattern (248 bp):
AGGAAGATTGCAGAAGAAACTAAGAAAAAGGCTTGGACGAAAGAAAATGTGCCGATTCAGAGATG
GCTAAAGCAGAGAAGCAGAAGAAGGTTGCTAAAGAAACTAAGAAGAAGGCCGCCGAAGAAAGAAA
ACTGCTGATTTAGAGATGGCTGAAGCAGCAGAACAACGAAGATTGCTGAAGAAAACATGAAGAAG
GCTGTTGAAGTAAGAAAACAAGCTGAGCTTGAGATGGCTAAGGCAAGGAGCAA
Found at i:8789 original size:35 final size:35
Alignment explanation
Indices: 8751--8955 Score: 226
Period size: 35 Copynumber: 5.9 Consensus size: 35
8741 TATATTATAG
*
8751 TTTTAAAACATTTTGAAAATAAATATAATATATGG
1 TTTTAAAACATTTTGAAAATAAATATAATATATGT
* * *
8786 TTTTAAAACATTTTTGAAAATATATATTATATA-AT
1 TTTTAAAACA-TTTTGAAAATAAATATAATATATGT
8821 TTTTAAAACATTTTGAAAATAAAATATAATATATAGT
1 TTTTAAAACATTTTGAAAAT-AAATATAATATAT-GT
* * * *
8858 TTTTAAAATATTTTTGAAAATATATGTTATATA-GT
1 TTTTAAAACA-TTTTGAAAATAAATATAATATATGT
8893 TTTTAAAACATTTTG---A-AAATATAATATA-GT
1 TTTTAAAACATTTTGAAAATAAATATAATATATGT
* * *
8923 TTTTAAAACATTTTGAAAACATATATATTATAT
1 TTTTAAAACATTTTGAAAATAAATATAATATAT
8956 AATTTTTGAA
Statistics
Matches: 143, Mismatches: 17, Indels: 20
0.79 0.09 0.11
Matches are distributed among these distances:
30 26 0.18
31 1 0.01
33 1 0.01
34 25 0.17
35 41 0.29
36 20 0.14
37 19 0.13
38 10 0.07
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.45
Consensus pattern (35 bp):
TTTTAAAACATTTTGAAAATAAATATAATATATGT
Found at i:8878 original size:72 final size:72
Alignment explanation
Indices: 8732--8962 Score: 302
Period size: 72 Copynumber: 3.3 Consensus size: 72
8722 CATTATATAT
* *
8732 ATATATATATATATTATAGTTTTAAAACATTTTGAAAAT-AAATATAATATAT-GGTTTTAAAAC
1 ATATATAT-TATA-TA-ATTTTTAAAACATTTTGAAAATAAAATATAATATATAGTTTTTAAAAC
8795 ATTTTTGAAA
63 ATTTTTGAAA
*
8805 ATATATATTATATAATTTTTAAAACATTTTGAAAATAAAATATAATATATAGTTTTTAAAATATT
1 ATATATATTATATAATTTTTAAAACATTTTGAAAATAAAATATAATATATAGTTTTTAAAACATT
8870 TTTGAAA
66 TTTGAAA
* *
8877 ATATATGTTATATAGTTTTTAAAACATTTTG-----AAAATAT-A-ATATAGTTTTTAAAACA-T
1 ATATATATTATATAATTTTTAAAACATTTTGAAAATAAAATATAATATATAGTTTTTAAAACATT
8934 TTTGAAAA
66 TTTG-AAA
8942 CATATATATTATATAATTTTT
1 -ATATATATTATATAATTTTT
8963 GAATATATAT
Statistics
Matches: 146, Mismatches: 8, Indels: 15
0.86 0.05 0.09
Matches are distributed among these distances:
64 5 0.03
65 19 0.13
66 19 0.13
67 7 0.05
70 21 0.14
71 15 0.10
72 52 0.36
73 8 0.05
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.46
Consensus pattern (72 bp):
ATATATATTATATAATTTTTAAAACATTTTGAAAATAAAATATAATATATAGTTTTTAAAACATT
TTTGAAA
Found at i:8963 original size:26 final size:26
Alignment explanation
Indices: 8933--8993 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
8923 TTTTAAAACA
8933 TTTTGAAAACATATATATTATATAAT
1 TTTTGAAAACATATATATTATATAAT
* * *
8959 TTTTGAATATATATATATTATATAGT
1 TTTTGAAAACATATATATTATATAAT
*
8985 TTTTAAAAA
1 TTTTGAAAA
8994 AACATTTTGG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (26 bp):
TTTTGAAAACATATATATTATATAAT
Found at i:9014 original size:65 final size:62
Alignment explanation
Indices: 8911--9035 Score: 162
Period size: 65 Copynumber: 2.0 Consensus size: 62
8901 CATTTTGAAA
8911 ATATAATATAGTTTTTAAAACATTTTGAAAACATATATATTATATA-ATTTTTGAATATATAT
1 ATATAATATAGTTTTTAAAACATTTTGAAAACATATATATTATATATATTTTTGAA-ATATAT
* * ** *
8973 ATATTATATAGTTTTTAAAAAAACATTTTGGAAATTTATATATTATATATGTTTTTGAAATAT
1 ATATAATATAGTTTTT---AAAACATTTTGAAAACATATATATTATATATATTTTTGAAATAT
9036 TTTTTATTTT
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
62 15 0.28
65 31 0.57
66 8 0.15
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.48
Consensus pattern (62 bp):
ATATAATATAGTTTTTAAAACATTTTGAAAACATATATATTATATATATTTTTGAAATATAT
Found at i:9086 original size:25 final size:24
Alignment explanation
Indices: 9038--9109 Score: 67
Period size: 25 Copynumber: 3.0 Consensus size: 24
9028 TGAAATATTT
* * *
9038 TTTATTTTTATTATAT-ATTATTA
1 TTTATTTTTATTTTATGTTTTTTA
9061 TATTATTTTTATTTTATGTTTTTTA
1 T-TTATTTTTATTTTATGTTTTTTA
*
9086 TTTCTTATTTATGTTT-TGTTTTTT
1 TTTATT-TTTAT-TTTATGTTTTTT
9110 GTTCATGGTC
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
23 1 0.02
24 18 0.44
25 19 0.46
26 3 0.07
ACGTcount: A:0.19, C:0.01, G:0.04, T:0.75
Consensus pattern (24 bp):
TTTATTTTTATTTTATGTTTTTTA
Found at i:9096 original size:11 final size:10
Alignment explanation
Indices: 9038--9102 Score: 51
Period size: 11 Copynumber: 5.9 Consensus size: 10
9028 TGAAATATTT
9038 TTTATTTTTA
1 TTTATTTTTA
9048 TTATATATTATTA
1 TT-TAT-TT-TTA
9061 TATTATTTTTA
1 T-TTATTTTTA
*
9072 TTTTATGTTT-
1 -TTTATTTTTA
9082 TTTATTTCTTA
1 TTTATTT-TTA
9093 TTTATGTTTT
1 TTTAT-TTTT
9103 GTTTTTTGTT
Statistics
Matches: 45, Mismatches: 2, Indels: 15
0.73 0.03 0.24
Matches are distributed among these distances:
9 6 0.13
10 4 0.09
11 20 0.44
12 7 0.16
13 7 0.16
14 1 0.02
ACGTcount: A:0.22, C:0.02, G:0.03, T:0.74
Consensus pattern (10 bp):
TTTATTTTTA
Found at i:9096 original size:20 final size:20
Alignment explanation
Indices: 9035--9102 Score: 68
Period size: 20 Copynumber: 3.2 Consensus size: 20
9025 TTTTGAAATA
9035 TTTTTTATTTTTATTATATAT-
1 TTTTTTATTTTTATT-T-TATG
9056 TATTATATTATTTTTATTTTATG
1 T-TT-T-TTATTTTTATTTTATG
9079 TTTTTTATTTCTTA-TTTATG
1 TTTTTTATTT-TTATTTTATG
9099 TTTT
1 TTTT
9103 GTTTTTTGTT
Statistics
Matches: 42, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
20 16 0.38
21 5 0.12
22 7 0.17
23 3 0.07
24 11 0.26
ACGTcount: A:0.21, C:0.01, G:0.03, T:0.75
Consensus pattern (20 bp):
TTTTTTATTTTTATTTTATG
Found at i:10281 original size:16 final size:16
Alignment explanation
Indices: 10227--10293 Score: 50
Period size: 16 Copynumber: 4.1 Consensus size: 16
10217 CATTTTATGC
10227 TATTTATTCTT-TTTTT
1 TATTTATT-TTATTTTT
* *
10243 TAATTTA-TCTATTTCCT
1 T-ATTTATTTTATTT-TT
10260 TA-TTATTTTATTTTT
1 TATTTATTTTATTTTT
10275 TATTTATTTAATATTTTT
1 TATTTATTT--TATTTTT
10293 T
1 T
10294 TCATTTGATC
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
15 7 0.17
16 18 0.45
17 7 0.17
18 8 0.20
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (16 bp):
TATTTATTTTATTTTT
Found at i:11754 original size:21 final size:21
Alignment explanation
Indices: 11728--11771 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
11718 CTGTAATAGT
* *
11728 ACTGTAGTAGTGCATCGATAC
1 ACTGTAGCAGTGCATCGAAAC
11749 ACTGTAGCAGTGCATCGAAAC
1 ACTGTAGCAGTGCATCGAAAC
11770 AC
1 AC
11772 AATTTATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.23
Consensus pattern (21 bp):
ACTGTAGCAGTGCATCGAAAC
Found at i:11833 original size:21 final size:21
Alignment explanation
Indices: 11792--11833 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
11782 CGATATTTTT
* *
11792 GTGCATTGGTACACTATAGCA
1 GTGCATCGGTACACTACAGCA
*
11813 GTGCATCGGTACACTGCAGCA
1 GTGCATCGGTACACTACAGCA
11834 CTGTTCATAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (21 bp):
GTGCATCGGTACACTACAGCA
Found at i:11885 original size:19 final size:19
Alignment explanation
Indices: 11861--11904 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
11851 CACTGTATTG
11861 TTCATACAGTATAGTACAA
1 TTCATACAGTATAGTACAA
* *
11880 TTCATATAGTATAGTACTA
1 TTCATACAGTATAGTACAA
11899 TTCATA
1 TTCATA
11905 AAACGTTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.39
Consensus pattern (19 bp):
TTCATACAGTATAGTACAA
Found at i:21405 original size:3 final size:3
Alignment explanation
Indices: 21399--21484 Score: 131
Period size: 3 Copynumber: 29.3 Consensus size: 3
21389 TCCAATAATA
* * *
21399 TAT TAT TAT TAT TAT TAT TA- TAT TAC AAT TAT TAT TAT CA- TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
21445 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
21485 GTTACAAATA
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
2 3 0.04
3 72 0.96
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:28824 original size:20 final size:20
Alignment explanation
Indices: 28799--28849 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
28789 GACATTTGAC
28799 AGACCCATGCACAAGAATCT
1 AGACCCATGCACAAGAATCT
28819 AGACCCATGCACAAGAATCT
1 AGACCCATGCACAAGAATCT
28839 AGACCCATGCA
1 AGACCCATGCA
28850 TCATTTGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.39, C:0.31, G:0.16, T:0.14
Consensus pattern (20 bp):
AGACCCATGCACAAGAATCT
Found at i:31877 original size:29 final size:29
Alignment explanation
Indices: 31845--31904 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
31835 TGGTAATAAT
* * *
31845 AAATTAAAGGGCTAAAACAGAAAAATAGA
1 AAATTAAAAGACTAAAACAGAAAAACAGA
* *
31874 AAATTAAAAGACTAAAATAGCAAAACAGA
1 AAATTAAAAGACTAAAACAGAAAAACAGA
31903 AA
1 AA
31905 CGTAGGGACT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.65, C:0.08, G:0.13, T:0.13
Consensus pattern (29 bp):
AAATTAAAAGACTAAAACAGAAAAACAGA
Found at i:33479 original size:3 final size:3
Alignment explanation
Indices: 33473--33558 Score: 106
Period size: 3 Copynumber: 28.7 Consensus size: 3
33463 AAAAAAAAAA
* *
33473 AAT AAT -AT AAT ATGT AAT ATT AAT AAT -AT AAT AAT AAT AAAT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
33518 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT ATAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AA
33559 ATAAGACCCG
Statistics
Matches: 73, Mismatches: 4, Indels: 12
0.82 0.04 0.13
Matches are distributed among these distances:
2 6 0.08
3 59 0.81
4 8 0.11
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:33980 original size:129 final size:129
Alignment explanation
Indices: 33711--34086 Score: 680
Period size: 129 Copynumber: 2.9 Consensus size: 129
33701 TGTTGGGGAC
* * * * * * *
33711 GACACTGCTCATACGTGATGAAGAGTTCTGATATGGGGAATGACACGGCTCATACGTGATGAAGA
1 GACACGGCTCCTACGTGATGAGGAGATCTGGTCTGGTG-ATGACACGGCTCATACGTGATGAAGA
33776 GTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTT
65 GTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTT
33841 GACACGGCTCCTACGTGATGAGGAGATCTGGTCTGGTGATGACACGGCTCATACGTGATGAAGAG
1 GACACGGCTCCTACGTGATGAGGAGATCTGGTCTGGTGATGACACGGCTCATACGTGATGAAGAG
33906 TTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTT
66 TTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTT
33970 GACACGGCTCCTACGTGATGAGGAGATCTGGTCTGGTGATGACACGGCTCATACGTGATGAAGAG
1 GACACGGCTCCTACGTGATGAGGAGATCTGGTCTGGTGATGACACGGCTCATACGTGATGAAGAG
34035 TTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGG
66 TTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGG
34087 CCATCTTTAG
Statistics
Matches: 239, Mismatches: 7, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
129 208 0.87
130 31 0.13
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (129 bp):
GACACGGCTCCTACGTGATGAGGAGATCTGGTCTGGTGATGACACGGCTCATACGTGATGAAGAG
TTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTT
Found at i:34087 original size:46 final size:45
Alignment explanation
Indices: 33750--34092 Score: 306
Period size: 46 Copynumber: 7.9 Consensus size: 45
33740 GATATGGGGA
* *
33750 ATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTG
1 ATGACACGGCTCCTACGTGATGAGGAGTTCTGGCCATCT-AAGGTG
* * * ** *
33796 ATAACACGGTTCCTACGTGATGAGGACG-GCTGGTTATCTATGGT-
1 ATGACACGGCTCCTACGTGATGAGGA-GTTCTGGCCATCTAAGGTG
*
33840 -TGACACGGCTCCTACGTGATGAGGAGATCTGG---TCT--GGTG
1 ATGACACGGCTCCTACGTGATGAGGAGTTCTGGCCATCTAAGGTG
* *
33879 ATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTG
1 ATGACACGGCTCCTACGTGATGAGGAGTTCTGGCCATCT-AAGGTG
* * * ** *
33925 ATAACACGGTTCCTACGTGATGAGGACG-GCTGGTTATCTATGGT-
1 ATGACACGGCTCCTACGTGATGAGGA-GTTCTGGCCATCTAAGGTG
*
33969 -TGACACGGCTCCTACGTGATGAGGAGATCTGG---TCT--GGTG
1 ATGACACGGCTCCTACGTGATGAGGAGTTCTGGCCATCTAAGGTG
* *
34008 ATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTG
1 ATGACACGGCTCCTACGTGATGAGGAGTTCTGGCCATCT-AAGGTG
* * *
34054 ATAACACGGTTCCTACGTGATGAGGACG-GCTGGCCATCT
1 ATGACACGGCTCCTACGTGATGAGGA-GTTCTGGCCATCT
34093 TTAGGAGTTA
Statistics
Matches: 243, Mismatches: 33, Indels: 42
0.76 0.10 0.13
Matches are distributed among these distances:
38 6 0.02
40 64 0.26
42 2 0.01
43 60 0.25
45 8 0.03
46 100 0.41
47 3 0.01
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.26
Consensus pattern (45 bp):
ATGACACGGCTCCTACGTGATGAGGAGTTCTGGCCATCTAAGGTG
Found at i:34145 original size:28 final size:28
Alignment explanation
Indices: 34105--34167 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
34095 AGGAGTTATG
* *
34105 GTTTCAAGAGAAACCA-AATTAAAGATTT
1 GTTTCAAAAGAAA-CAGAATCAAAGATTT
*
34133 GTTTCAAAAGAAACAGACTCAAAGATTT
1 GTTTCAAAAGAAACAGAATCAAAGATTT
34161 GTTTCAA
1 GTTTCAA
34168 GAAAACAAGC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
27 2 0.06
28 29 0.94
ACGTcount: A:0.44, C:0.13, G:0.14, T:0.29
Consensus pattern (28 bp):
GTTTCAAAAGAAACAGAATCAAAGATTT
Found at i:34196 original size:30 final size:28
Alignment explanation
Indices: 34125--34200 Score: 93
Period size: 28 Copynumber: 2.6 Consensus size: 28
34115 AAACCAAATT
34125 AAAGATTTGTTTCAAAAGAAACAGACTC
1 AAAGATTTGTTTCAAAAGAAACAGACTC
*
34153 AAAGATTTGTTTCAAGA-AAACA-AGCTC
1 AAAGATTTGTTTCAAAAGAAACAGA-CTC
34180 AAAGATAATGTGTTTCAAAAG
1 AAAGAT--T-TGTTTCAAAAG
34201 CAACTGTCTC
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
26 1 0.02
27 14 0.34
28 16 0.39
29 1 0.02
30 9 0.22
ACGTcount: A:0.46, C:0.12, G:0.16, T:0.26
Consensus pattern (28 bp):
AAAGATTTGTTTCAAAAGAAACAGACTC
Found at i:34391 original size:66 final size:65
Alignment explanation
Indices: 34202--34391 Score: 154
Period size: 66 Copynumber: 2.9 Consensus size: 65
34192 TTTCAAAAGC
** * *
34202 AACTGTCTCGAAAGAGACAAAATTCATTTCAAATGAAACAA-CTCAAAAGATG-ACGTTTAAAGG
1 AACTGTCTC-AAAGAGACAAAATTCATTTCAAGGGAAACAATTTC-AAAGATGTATGTTTAAAGG
34265 GA
64 GA
* * ** * * * * * * *
34267 AATTGTCTCAAGCGAGACAAAATTTGTTTTTAAGGG-AAC-GTTCTCAAATATCTGTGTTTCATG
1 AACTGTCTCAA-AGAGACAAAA-TTCATTTCAAGGGAAACAATT-TCAAAGATGTATGTTTAAAG
34330 GGA
63 GGA
*
34333 AACTGTCTCAAATGAGACAAAATTCATTTCAAGGGAAACAATTTCAAAGATGTTTGTTT
1 AACTGTCTCAAA-GAGACAAAATTCATTTCAAGGGAAACAATTTCAAAGATGTATGTTT
34392 TGTTTCATGG
Statistics
Matches: 93, Mismatches: 24, Indels: 15
0.70 0.18 0.11
Matches are distributed among these distances:
64 2 0.02
65 35 0.38
66 54 0.58
67 2 0.02
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.29
Consensus pattern (65 bp):
AACTGTCTCAAAGAGACAAAATTCATTTCAAGGGAAACAATTTCAAAGATGTATGTTTAAAGGGA
Found at i:34584 original size:63 final size:65
Alignment explanation
Indices: 34426--34585 Score: 159
Period size: 63 Copynumber: 2.5 Consensus size: 65
34416 GATGGTAAAT
* *
34426 TTTGTTTTCCAAAGAAACAAACTCAAAGAT--TTTTCTCAAAGAAATTGTCTCGAGAGAAACAAA
1 TTTG-TTTCCAAAGAAACAAACTCAAAGATGATTTTCTAAAAGAAATTGTCTCAAGAGAAACAAA
34489 A
65 A
* * * * * * *
34490 TTTTGTTTCCAAAGAAAGAGATTCAATGATGATTTTC-AAAAGAAATTGTTTTAAGGGATAA-AA
1 -TTTGTTTCCAAAGAAACAAACTCAAAGATGATTTTCTAAAAGAAATTGTCTCAAGAGA-AACAA
*
34553 CA
64 AA
*
34555 -TTGTTTCCAGAGAAACAAACTCAAAGATGAT
1 TTTGTTTCCAAAGAAACAAACTCAAAGATGAT
34586 CTTGTTTTAA
Statistics
Matches: 77, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
63 26 0.34
64 21 0.27
65 23 0.30
66 7 0.09
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (65 bp):
TTTGTTTCCAAAGAAACAAACTCAAAGATGATTTTCTAAAAGAAATTGTCTCAAGAGAAACAAAA
Found at i:34612 original size:15 final size:15
Alignment explanation
Indices: 34588--34631 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
34578 AAGATGATCT
*
34588 TGTTTTAAGAGAAAA
1 TGTTTCAAGAGAAAA
34603 TGTTTCAAGAGAAAA
1 TGTTTCAAGAGAAAA
*
34618 TGTTTCAAGTGAAA
1 TGTTTCAAGAGAAA
34632 CAACTCAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.43, C:0.05, G:0.20, T:0.32
Consensus pattern (15 bp):
TGTTTCAAGAGAAAA
Found at i:34787 original size:40 final size:40
Alignment explanation
Indices: 34727--34806 Score: 117
Period size: 40 Copynumber: 2.0 Consensus size: 40
34717 GTTTTAATAA
34727 AAACAATCTCAAAGGTGGGTAGTTTT-AAAAGAAATTGTCT
1 AAACAATCTCAAAGGTGGGTA-TTTTCAAAAGAAATTGTCT
* * *
34767 AAACGATCTCAAATGTGGGTATTTTCAAAAGAAGTTGTCT
1 AAACAATCTCAAAGGTGGGTATTTTCAAAAGAAATTGTCT
34807 CGAGAGACAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
39 4 0.11
40 32 0.89
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (40 bp):
AAACAATCTCAAAGGTGGGTATTTTCAAAAGAAATTGTCT
Found at i:34860 original size:63 final size:63
Alignment explanation
Indices: 34788--34912 Score: 180
Period size: 64 Copynumber: 2.0 Consensus size: 63
34778 AATGTGGGTA
* * *
34788 TTTTCAAAAGAAGTTGTC-TCGAGAGACAAAATTTTGTTTCAAAGGAAACAAACTCAAAGATT
1 TTTTCAAAAGAAATTGTCTTCAAGAGACAAAATTTTGTTTCAAAAGAAACAAACTCAAAGATT
* * *
34850 TTTTCCAAAAGAAATTGTCTTTAAGAGATAAAATTTTGTTTCAAAAGAAACAGACTCAAAGAT
1 TTTT-CAAAAGAAATTGTCTTCAAGAGACAAAATTTTGTTTCAAAAGAAACAAACTCAAAGAT
34913 GGATCCCATC
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
62 4 0.07
63 13 0.24
64 38 0.69
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.30
Consensus pattern (63 bp):
TTTTCAAAAGAAATTGTCTTCAAGAGACAAAATTTTGTTTCAAAAGAAACAAACTCAAAGATT
Found at i:35184 original size:63 final size:64
Alignment explanation
Indices: 35080--35302 Score: 247
Period size: 67 Copynumber: 3.5 Consensus size: 64
35070 ATGAACATAT
* * * * * * *
35080 TCAAAGATTTACTTCAAGAGAAACTGTCTCAAGAGATACAAAATTCAT-TTT-AAGAGAAACAGA
1 TCAAAGATTTATTTCAAAAGAAACTATCTTAAGAGAGACAAAATT-TTGTTTCAA-AGAAACAAA
*
35143 T
64 C
* *
35144 TCAAAGATTT-TTTCAAAAGAAATTATCTTAAAAGAGACAAAATTTTGTTTCCAAAGAAACAAAC
1 TCAAAGATTTATTTCAAAAGAAACTATCTTAAGAGAGACAAAATTTTGTTT-CAAAGAAACAAAC
* *
35208 TCAAAGATTTTTGTTTTAAAAGAAACTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAA
1 TCAAAGA--TTTATTTCAAAAGAAACTATCTTAAGAGAGACAAAATTTTGTTT-CAAAGAAACAA
35273 AC
63 AC
*
35275 TCAAAGATTT-TTTCAAAAGAAACAATCT
1 TCAAAGATTTATTTCAAAAGAAACTATCT
35303 CAAAGATTTT
Statistics
Matches: 138, Mismatches: 15, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
62 1 0.01
63 30 0.22
64 41 0.30
65 5 0.04
66 3 0.02
67 58 0.42
ACGTcount: A:0.46, C:0.13, G:0.11, T:0.30
Consensus pattern (64 bp):
TCAAAGATTTATTTCAAAAGAAACTATCTTAAGAGAGACAAAATTTTGTTTCAAAGAAACAAAC
Found at i:35200 original size:37 final size:37
Alignment explanation
Indices: 35154--35270 Score: 104
Period size: 37 Copynumber: 3.4 Consensus size: 37
35144 TCAAAGATTT
*
35154 TTTCAAAAGAAATTATCTTAAAAGAGACAAAATTTTG
1 TTTCAAAAGAAACTATCTTAAAAGAGACAAAATTTTG
* * * * *
35191 TTTCCAAAGAAACAAAC-T-CAA-AG----ATTTTTG
1 TTTCAAAAGAAACTATCTTAAAAGAGACAAAATTTTG
* *
35221 TTTTAAAAGAAACTATCTTAAGAGAGACAAAATTTTG
1 TTTCAAAAGAAACTATCTTAAAAGAGACAAAATTTTG
*
35258 TTTCCAAAGAAAC
1 TTTCAAAAGAAAC
35271 AAACTCAAAG
Statistics
Matches: 58, Mismatches: 15, Indels: 14
0.67 0.17 0.16
Matches are distributed among these distances:
30 19 0.33
31 1 0.02
32 1 0.02
33 2 0.03
34 2 0.03
35 2 0.03
36 1 0.02
37 30 0.52
ACGTcount: A:0.46, C:0.12, G:0.11, T:0.31
Consensus pattern (37 bp):
TTTCAAAAGAAACTATCTTAAAAGAGACAAAATTTTG
Found at i:35312 original size:26 final size:27
Alignment explanation
Indices: 35258--35314 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
35248 CAAAATTTTG
*
35258 TTTCCAAAGAAACAAACTCAAAGATTT
1 TTTCAAAAGAAACAAACTCAAAGATTT
*
35285 TTTCAAAAGAAACAATCTCAAAGATTT
1 TTTCAAAAGAAACAAACTCAAAGATTT
35312 TTT
1 TTT
35315 TTCAAAATTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.46, C:0.16, G:0.07, T:0.32
Consensus pattern (27 bp):
TTTCAAAAGAAACAAACTCAAAGATTT
Found at i:35375 original size:52 final size:53
Alignment explanation
Indices: 35301--35403 Score: 163
Period size: 52 Copynumber: 2.0 Consensus size: 53
35291 AAGAAACAAT
**
35301 CTCAAAGATTTTTTTTCAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGA
1 CTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGA
* *
35354 CTCAAAGA-TTTTTCACGAAATTGTCTCAAGAGAGACATAACTTTGTTTCA
1 CTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCA
35404 AAATAAATAG
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
52 38 0.83
53 8 0.17
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.35
Consensus pattern (53 bp):
CTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGA
Found at i:35446 original size:25 final size:25
Alignment explanation
Indices: 35399--35492 Score: 89
Period size: 27 Copynumber: 3.5 Consensus size: 25
35389 CATAACTTTG
* *
35399 TTTCAAAATAAATAGACTCAAAGATT
1 TTTCAAAAGAAACA-ACTCAAAGATT
35425 TTTCAAAAGAAACAACTCAAAGATATT
1 TTTCAAAAGAAACAACTCAAAG--ATT
* *
35452 TATTCAAAAGGAACAAACTCCAAGATTT
1 T-TTCAAAAGAAAC-AACTCAAAGA-TT
*
35480 TTTCAAGAGAAAC
1 TTTCAAAAGAAAC
35493 TGTCTCAAGA
Statistics
Matches: 57, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
25 8 0.14
26 12 0.21
27 15 0.26
28 14 0.25
29 8 0.14
ACGTcount: A:0.49, C:0.15, G:0.10, T:0.27
Consensus pattern (25 bp):
TTTCAAAAGAAACAACTCAAAGATT
Found at i:35846 original size:36 final size:36
Alignment explanation
Indices: 35735--35853 Score: 113
Period size: 36 Copynumber: 3.4 Consensus size: 36
35725 AAAAAATGAT
* *
35735 GTCTCAAGCGAGACGAAA-TTTG-CTTTA-AGATATA-
1 GTCTCAAGCGAGAC-AAAGTTTGTTTTTAGAGA-AAAC
** **
35769 GTCTCAAATGAGACAAAGTTTGTTTTTAGAGAAATT
1 GTCTCAAGCGAGACAAAGTTTGTTTTTAGAGAAAAC
35805 GTCTCAAGCGAGACAAAGTTTGTTTTT-GAGAAAAC
1 GTCTCAAGCGAGACAAAGTTTGTTTTTAGAGAAAAC
*
35840 GATCTCAAGTGAGA
1 G-TCTCAAGCGAGA
35854 TCAACTTTGT
Statistics
Matches: 70, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
33 3 0.04
34 16 0.23
35 12 0.17
36 39 0.56
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (36 bp):
GTCTCAAGCGAGACAAAGTTTGTTTTTAGAGAAAAC
Found at i:35865 original size:36 final size:36
Alignment explanation
Indices: 35769--35853 Score: 118
Period size: 36 Copynumber: 2.4 Consensus size: 36
35759 TTAAGATATA
* **
35769 GTCTCAAATGAGACAAAGTTTGTTTTTAGAGAAATT
1 GTCTCAAGTGAGACAAAGTTTGTTTTTAGAGAAAAC
*
35805 GTCTCAAGCGAGACAAAGTTTGTTTTT-GAGAAAAC
1 GTCTCAAGTGAGACAAAGTTTGTTTTTAGAGAAAAC
35840 GATCTCAAGTGAGA
1 G-TCTCAAGTGAGA
35854 TCAACTTTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
35 7 0.16
36 36 0.84
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (36 bp):
GTCTCAAGTGAGACAAAGTTTGTTTTTAGAGAAAAC
Found at i:35985 original size:105 final size:104
Alignment explanation
Indices: 35805--36044 Score: 317
Period size: 105 Copynumber: 2.3 Consensus size: 104
35795 TAGAGAAATT
* *
35805 GTCTCAAGCGAGACAAAGTTTGTTTT-TGAG-AAAACGATCTCAAGTGAGATCAACTTTGTTTAA
1 GTCTCAAGCGAGACAAAGTTTGTTTTAAGAGAAAAACAATCTCAAGTGAGATCAACTTTGTTTAA
* *
35868 TGTGAAACAAATTCGAAATTTGGATCTCAAAGGGAAAAG
66 TGTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAG
* * * *
35907 GTCTCAAGCGAGACAAAATTTGTTTTAAAAGAAACAACAATCT-AAGGTGAGATTAATTTTGTTT
1 GTCTCAAGCGAGACAAAGTTTGTTTTAAGAGAAA-AACAATCTCAA-GTGAGATCAACTTTG-TT
* * *
35971 TAA-GTGAATCAAATTCAAAATTTGTATCTCAAAGGAAAAAT
63 TAATGTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAG
*
36012 GTCTCAAGCGAGACGAAGTTTGTTTTAAGAGAA
1 GTCTCAAGCGAGACAAAGTTTGTTTTAAGAGAA
36045 TTTGTCTCAA
Statistics
Matches: 119, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
102 25 0.21
103 2 0.02
104 4 0.03
105 83 0.70
106 5 0.04
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.30
Consensus pattern (104 bp):
GTCTCAAGCGAGACAAAGTTTGTTTTAAGAGAAAAACAATCTCAAGTGAGATCAACTTTGTTTAA
TGTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAG
Found at i:36051 original size:36 final size:36
Alignment explanation
Indices: 36011--36147 Score: 170
Period size: 36 Copynumber: 3.8 Consensus size: 36
36001 AAAGGAAAAA
* * *
36011 TGTCTCAAGCGAGACGAAGTTTGTTTTAAGAGAATT
1 TGTCTCAAGCGAGACAAAATTTGTTTTAAGAGAAAT
* * **
36047 TGTCTCAAACGAGACAAAATTTGTTTTTAGA-AAGC
1 TGTCTCAAGCGAGACAAAATTTGTTTTAAGAGAAAT
*
36082 TGTCTCAAGCGAGACAAAATTTGCTTTGAA-AGAAAT
1 TGTCTCAAGCGAGACAAAATTTG-TTTTAAGAGAAAT
36118 TGTCTCAAGCGAGACAAAAATTTGTTTTAA
1 TGTCTCAAGCGAGAC-AAAATTTGTTTTAA
36148 AATTCTCAAA
Statistics
Matches: 86, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
35 25 0.29
36 53 0.62
37 8 0.09
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (36 bp):
TGTCTCAAGCGAGACAAAATTTGTTTTAAGAGAAAT
Found at i:36121 original size:71 final size:72
Alignment explanation
Indices: 36011--36145 Score: 202
Period size: 71 Copynumber: 1.9 Consensus size: 72
36001 AAAGGAAAAA
* * * *
36011 TGTCTCAAGCGAGACGAAGTTTGTTTTAAGAGAATTTGTCTCAAACGAGAC-AAAATTTGTTTTT
1 TGTCTCAAGCGAGACAAAATTTGTTTGAAGAGAAATTGTCTCAAACGAGACAAAAATTTGTTTTT
36075 AGAAAGC
66 AGAAAGC
*
36082 TGTCTCAAGCGAGACAAAATTTGCTTTGAA-AGAAATTGTCTCAAGCGAGACAAAAATTTGTTTT
1 TGTCTCAAGCGAGACAAAATTTG-TTTGAAGAGAAATTGTCTCAAACGAGACAAAAATTTGTTTT
36146 AAAATTCTCA
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
71 40 0.70
72 17 0.30
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.32
Consensus pattern (72 bp):
TGTCTCAAGCGAGACAAAATTTGTTTGAAGAGAAATTGTCTCAAACGAGACAAAAATTTGTTTTT
AGAAAGC
Found at i:38461 original size:26 final size:24
Alignment explanation
Indices: 38431--38501 Score: 78
Period size: 20 Copynumber: 3.0 Consensus size: 24
38421 CAAGGTGGAA
38431 AGAATATTTCAAGGTCTCAAAGAG
1 AGAATATTTCAAGGTCTCAAAGAG
* *
38455 AGGGAATGTTTCAAGG--TCGAA-A-
1 A--GAATATTTCAAGGTCTCAAAGAG
38477 AGAATATTTCAAGGTCTCAAAGAG
1 AGAATATTTCAAGGTCTCAAAGAG
38501 A
1 A
38502 TAGAATGTCA
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
20 12 0.32
22 5 0.14
23 2 0.05
24 6 0.16
26 12 0.32
ACGTcount: A:0.41, C:0.11, G:0.24, T:0.24
Consensus pattern (24 bp):
AGAATATTTCAAGGTCTCAAAGAG
Found at i:38486 original size:20 final size:20
Alignment explanation
Indices: 38418--38492 Score: 62
Period size: 20 Copynumber: 3.5 Consensus size: 20
38408 AAATACAGTG
*
38418 TTTCAAGGT-GGAAAGAATA
1 TTTCAAGGTCGAAAAGAATA
* *
38437 TTTCAAGGTCTCAAAGAGAGGGAATG
1 TTTCAAGG--TCGAA-A-A--GAATA
38463 TTTCAAGGTCGAAAAGAATA
1 TTTCAAGGTCGAAAAGAATA
38483 TTTCAAGGTC
1 TTTCAAGGTC
38493 TCAAAGAGAT
Statistics
Matches: 44, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
19 8 0.18
20 14 0.32
21 1 0.02
22 2 0.05
23 2 0.05
24 5 0.11
26 12 0.27
ACGTcount: A:0.37, C:0.11, G:0.25, T:0.27
Consensus pattern (20 bp):
TTTCAAGGTCGAAAAGAATA
Found at i:38506 original size:26 final size:26
Alignment explanation
Indices: 38428--38507 Score: 82
Period size: 26 Copynumber: 3.3 Consensus size: 26
38418 TTTCAAGGTG
38428 GAAAGAATATTTCAAGGTCTCAAAGA
1 GAAAGAATATTTCAAGGTCTCAAAGA
** *
38454 GAGGGAATGTTTCAAGG--TC---GA
1 GAAAGAATATTTCAAGGTCTCAAAGA
38475 -AAAGAATATTTCAAGGTCTCAAAGA
1 GAAAGAATATTTCAAGGTCTCAAAGA
*
38500 GATAGAAT
1 GAAAGAAT
38508 GTCAAAAATT
Statistics
Matches: 41, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
20 13 0.32
21 2 0.05
22 2 0.05
24 2 0.05
25 2 0.05
26 20 0.49
ACGTcount: A:0.42, C:0.10, G:0.24, T:0.24
Consensus pattern (26 bp):
GAAAGAATATTTCAAGGTCTCAAAGA
Found at i:38508 original size:46 final size:45
Alignment explanation
Indices: 38416--38509 Score: 152
Period size: 46 Copynumber: 2.1 Consensus size: 45
38406 ATAAATACAG
* *
38416 TGTTTCAAGGTGGAAAGAATATTTCAAGGTCTCAAAGAGAGGGAA
1 TGTTTCAAGGTGAAAAGAATATTTCAAGGTCTCAAAGAGAGAGAA
*
38461 TGTTTCAAGGTCGAAAAGAATATTTCAAGGTCTCAAAGAGATAGAA
1 TGTTTCAAGGT-GAAAAGAATATTTCAAGGTCTCAAAGAGAGAGAA
38507 TGT
1 TGT
38510 CAAAAATTGG
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
45 11 0.24
46 34 0.76
ACGTcount: A:0.38, C:0.10, G:0.26, T:0.27
Consensus pattern (45 bp):
TGTTTCAAGGTGAAAAGAATATTTCAAGGTCTCAAAGAGAGAGAA
Found at i:42934 original size:29 final size:29
Alignment explanation
Indices: 42902--42961 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
42892 TGGTAATAAT
* * *
42902 AAATTAAAGGGCTAAAACAGAAAAATAGA
1 AAATTAAAAGACTAAAACAGAAAAACAGA
* *
42931 AAATTAAAAGACTAAAATAGCAAAACAGA
1 AAATTAAAAGACTAAAACAGAAAAACAGA
42960 AA
1 AA
42962 CGTAGGGACT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.65, C:0.08, G:0.13, T:0.13
Consensus pattern (29 bp):
AAATTAAAAGACTAAAACAGAAAAACAGA
Found at i:44538 original size:3 final size:3
Alignment explanation
Indices: 44532--44617 Score: 106
Period size: 3 Copynumber: 28.7 Consensus size: 3
44522 AAAAAAAAAA
* *
44532 AAT AAT -AT AAT ATGT AAT ATT AAT AAT -AT AAT AAT AAT AAAT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
44577 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT ATAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AA
44618 ATAAGACCCG
Statistics
Matches: 73, Mismatches: 4, Indels: 12
0.82 0.04 0.13
Matches are distributed among these distances:
2 6 0.08
3 59 0.81
4 8 0.11
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:54711 original size:58 final size:59
Alignment explanation
Indices: 54633--54764 Score: 162
Period size: 58 Copynumber: 2.3 Consensus size: 59
54623 GTAAAGTAGG
* * * * *
54633 CAAATGATCTCTCGAGTATAGGATGTTATTTTGTTGAGT-TAT-TGATTTTTAAAAGTTA
1 CAAATGATCACTCGAGTATAGGATGTTATTTTGTTCAGTCT-TCCGACTATTAAAAGTTA
* *
54691 CAAAGTGAT-ACTCGATTATAGGATGTTGTTTTGTTCAGTCTTCCGACTATTAAAAGTTA
1 CAAA-TGATCACTCGAGTATAGGATGTTATTTTGTTCAGTCTTCCGACTATTAAAAGTTA
54750 CAAATGATCACTCGA
1 CAAATGATCACTCGA
54765 CTATCTATAT
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
58 35 0.56
59 28 0.44
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.39
Consensus pattern (59 bp):
CAAATGATCACTCGAGTATAGGATGTTATTTTGTTCAGTCTTCCGACTATTAAAAGTTA
Found at i:57944 original size:19 final size:21
Alignment explanation
Indices: 57911--57949 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
57901 TGGAAATTAA
*
57911 TGTTAGAGTGATG-AATTTGG
1 TGTTAGAATGATGAAATTTGG
57931 TGTTAGAATG-TGAAATTTG
1 TGTTAGAATGATGAAATTTG
57950 ACTATTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.28, C:0.00, G:0.31, T:0.41
Consensus pattern (21 bp):
TGTTAGAATGATGAAATTTGG
Found at i:59764 original size:13 final size:12
Alignment explanation
Indices: 59735--59779 Score: 54
Period size: 13 Copynumber: 3.6 Consensus size: 12
59725 AAACGAAATG
*
59735 TGAAAGTGAACA
1 TGAAAGTGAAAA
59747 TGAAAGTGAAAGA
1 TGAAAGTGAAA-A
*
59760 TGAAAATGAGAAA
1 TGAAAGTGA-AAA
59773 TGAAAGT
1 TGAAAGT
59780 TTTGTATTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
12 10 0.36
13 16 0.57
14 2 0.07
ACGTcount: A:0.53, C:0.02, G:0.27, T:0.18
Consensus pattern (12 bp):
TGAAAGTGAAAA
Found at i:62505 original size:22 final size:20
Alignment explanation
Indices: 62480--62520 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 20
62470 TAATTTGATG
62480 TAATTTTAATTCTTAACTTTTT
1 TAATTTTAATT-TTAA-TTTTT
62502 TAATTTTAATTTTAATTTT
1 TAATTTTAATTTTAATTTT
62521 AATTTTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.21
21 4 0.21
22 11 0.58
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (20 bp):
TAATTTTAATTTTAATTTTT
Found at i:62508 original size:6 final size:6
Alignment explanation
Indices: 62480--62526 Score: 58
Period size: 6 Copynumber: 7.2 Consensus size: 6
62470 TAATTTGATG
62480 TAATTT TAATTCT TAACTTTTT TAATTT TAATTT TAATTT TAATTT T
1 TAATTT TAATT-T TAA---TTT TAATTT TAATTT TAATTT TAATTT T
62527 TAATCTGTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
6 27 0.73
7 4 0.11
9 4 0.11
10 2 0.05
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (6 bp):
TAATTT
Found at i:62537 original size:27 final size:26
Alignment explanation
Indices: 62480--62530 Score: 77
Period size: 28 Copynumber: 1.9 Consensus size: 26
62470 TAATTTGATG
62480 TAATTTTAATTCTTAACTTTTTTAATTT
1 TAATTTTAATT-TTAAC-TTTTTAATTT
62508 TAATTTTAATTTTAA-TTTTTAAT
1 TAATTTTAATTTTAACTTTTTAAT
62531 CTGTTAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 8 0.35
27 4 0.17
28 11 0.48
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (26 bp):
TAATTTTAATTTTAACTTTTTAATTT
Found at i:62871 original size:22 final size:22
Alignment explanation
Indices: 62846--62890 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
62836 CTCAGTCAAC
62846 CATCAATCAAACTCATGTTATA
1 CATCAATCAAACTCATGTTATA
62868 CATCAATCAAACTCATGTTATA
1 CATCAATCAAACTCATGTTATA
62890 C
1 C
62891 CTACGCCTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.31
Consensus pattern (22 bp):
CATCAATCAAACTCATGTTATA
Found at i:68721 original size:18 final size:18
Alignment explanation
Indices: 68698--68737 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
68688 GCCAACAACG
68698 TCAATACCATCATCAGAC
1 TCAATACCATCATCAGAC
*
68716 TCAATACCATTATCAGAC
1 TCAATACCATCATCAGAC
68734 TCAA
1 TCAA
68738 ACAATGTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.40, C:0.30, G:0.05, T:0.25
Consensus pattern (18 bp):
TCAATACCATCATCAGAC
Found at i:73926 original size:59 final size:58
Alignment explanation
Indices: 73859--73986 Score: 141
Period size: 58 Copynumber: 2.2 Consensus size: 58
73849 GTAAAGTAGG
* *
73859 CAAATGATCTATCGACTATAGGATATTATCTTGTTGATTC-CCCGACTAGTAAAAGTTA
1 CAAATGATC-ACCGACTATAGGATATTATCTTGTTGAGTCTCCCGACTAGTAAAAGTTA
* * * * * ** *
73917 CAAAGTGATCCCCGATTATAGGATGTTGTTTTGTTGAGTCTTTCGACTATTAAAAGTTA
1 CAAA-TGATCACCGACTATAGGATATTATCTTGTTGAGTCTCCCGACTAGTAAAAGTTA
73976 CAAATGATCAC
1 CAAATGATCAC
73987 TCAACTATTC
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
58 33 0.58
59 24 0.42
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.35
Consensus pattern (58 bp):
CAAATGATCACCGACTATAGGATATTATCTTGTTGAGTCTCCCGACTAGTAAAAGTTA
Found at i:74462 original size:24 final size:24
Alignment explanation
Indices: 74427--74474 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
74417 AAGAAATCGG
*
74427 TCTAAATTTGTAAATATG-ATATGA
1 TCTAAATCTGTAAATA-GAATATGA
74451 TCTAAATCTGTAAATAGAATATGA
1 TCTAAATCTGTAAATAGAATATGA
74475 GTTCATAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 21 0.95
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (24 bp):
TCTAAATCTGTAAATAGAATATGA
Found at i:74999 original size:25 final size:24
Alignment explanation
Indices: 74945--75003 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
74935 CCTGAACCCG
*
74945 ATGACTCGAATTGAGACCCGAAAT
1 ATGACTCGAAATGAGACCCGAAAT
74969 AT-ACTCGAACATGATGACCC-AAAT
1 ATGACTCGAA-ATGA-GACCCGAAAT
*
74993 TTGACTCGAAA
1 ATGACTCGAAA
75004 CTCAAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
23 7 0.23
24 11 0.37
25 12 0.40
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.22
Consensus pattern (24 bp):
ATGACTCGAAATGAGACCCGAAAT
Found at i:75085 original size:16 final size:16
Alignment explanation
Indices: 75046--75085 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
75036 AATTTTAGCC
75046 AAACTGAAAGTAACCT
1 AAACTGAAAGTAACCT
* *
75062 GAACTGAAATTAACCT
1 AAACTGAAAGTAACCT
*
75078 AAATTGAA
1 AAACTGAA
75086 CTGAAACTGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.50, C:0.15, G:0.12, T:0.23
Consensus pattern (16 bp):
AAACTGAAAGTAACCT
Found at i:75633 original size:29 final size:29
Alignment explanation
Indices: 75587--75659 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
75577 TAAATTGGGG
*
75587 ATATGATCCCACGCAAAAACAGGACGAG-A
1 ATATGATCCCATGCAAAAACAGGAC-AGTA
* *
75616 ATATGATCCCATGTAAAAACAGGACAGTG
1 ATATGATCCCATGCAAAAACAGGACAGTA
*
75645 ATATAATCCCATGCA
1 ATATGATCCCATGCA
75660 TGATCAGGAT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
28 2 0.05
29 36 0.95
ACGTcount: A:0.42, C:0.22, G:0.18, T:0.18
Consensus pattern (29 bp):
ATATGATCCCATGCAAAAACAGGACAGTA
Found at i:75697 original size:29 final size:29
Alignment explanation
Indices: 75644--75723 Score: 90
Period size: 29 Copynumber: 2.8 Consensus size: 29
75634 ACAGGACAGT
*
75644 GATATAATCCCATGCATG-ATCAGGATGAA
1 GATATAATCCCATGCA-GAATGAGGATGAA
* **
75673 TATATAATCCCATGCAGAATGAGGATGGG
1 GATATAATCCCATGCAGAATGAGGATGAA
* *
75702 GATTTAATCCCATGTAGAATGA
1 GATATAATCCCATGCAGAATGA
75724 CAGAAATGCA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 1 0.02
29 42 0.98
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (29 bp):
GATATAATCCCATGCAGAATGAGGATGAA
Found at i:76065 original size:30 final size:30
Alignment explanation
Indices: 76015--76091 Score: 100
Period size: 30 Copynumber: 2.5 Consensus size: 30
76005 GTGTCTATAG
* *
76015 AGTATAAATTTTAGAAAGTTTAAGTACCAAA
1 AGTATAAA-TTTAAAAAGTTTAAGGACCAAA
* *
76046 AGTGTAAATTTAAAAAGTTTAGGGACCAAA
1 AGTATAAATTTAAAAAGTTTAAGGACCAAA
*
76076 AGTATAATTTTAAAAA
1 AGTATAAATTTAAAAA
76092 TCTAGGTCTT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
30 33 0.82
31 7 0.17
ACGTcount: A:0.49, C:0.05, G:0.14, T:0.31
Consensus pattern (30 bp):
AGTATAAATTTAAAAAGTTTAAGGACCAAA
Found at i:81513 original size:13 final size:13
Alignment explanation
Indices: 81497--81521 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
81487 TTTCATATAT
81497 AAAATTATCACAA
1 AAAATTATCACAA
81510 AAAATTATCACA
1 AAAATTATCACA
81522 TTGATATATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (13 bp):
AAAATTATCACAA
Found at i:90774 original size:135 final size:134
Alignment explanation
Indices: 90502--90781 Score: 377
Period size: 135 Copynumber: 2.1 Consensus size: 134
90492 TTCCGTTTTC
* * * *
90502 AGGGAATATCAGATCTGGGGATGTTGATCCATTCCGCTATCACTCAAGGAAGATTGAATCGGGAT
1 AGGGAATATCAAATCTGGGGAGGTTGATACATTCCGCTATCACTCAAGGAAAATTGAATCGGGAT
* * *
90567 AGACTTGTTCCGCTGTCACTCAGGGAATATTAAATCTTAGAAAAGAAGGATCTATTCCGCTTCTT
66 AGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTAGAAAAGAAGGATATATTCCGCTTCTT
*
90632 CTTA
131 CTGA
* * *
90636 AGGGAATATCAAATTTGGAGGAGGTTGATACATTCCG-TCGTCACTCAGGGAAAATTGAATCAGG
1 AGGGAATATCAAATCTGG-GGAGGTTGATACATTCCGCT-ATCACTCAAGGAAAATTGAATC-GG
* * *
90700 G-TAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGGAAAAGAGGGATATGTTCCGCTT
63 GATAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTAGAAAAGAAGGATATATTCCGCTT
90764 AC-TCTGA
128 -CTTCTGA
90771 AGGGAATATCA
1 AGGGAATATCA
90782 GATATTGGGG
Statistics
Matches: 128, Mismatches: 14, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
134 17 0.13
135 107 0.84
136 4 0.03
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.28
Consensus pattern (134 bp):
AGGGAATATCAAATCTGGGGAGGTTGATACATTCCGCTATCACTCAAGGAAAATTGAATCGGGAT
AGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTAGAAAAGAAGGATATATTCCGCTTCTT
CTGA
Found at i:90974 original size:111 final size:111
Alignment explanation
Indices: 90689--91305 Score: 772
Period size: 111 Copynumber: 5.6 Consensus size: 111
90679 CTCAGGGAAA
* * *
90689 ATTGAATCAGGGTAGACTTGTTCCACTGTCACTC---AGGGAATATCAAATCTTGGAAAAGAGGG
1 ATTGAATCGGGGCAGACTTGTTCCACT-T-ACTCTGAAGGGAATATCAAATCTTGGAAAAGAGAG
** * * *
90751 ATATGTTCCGCTTACTCTGAAGGGAATATCAGATATTGGGGATTTGATC
64 ACCTGTTCCGCTTACTCTGAAGGGAAAATCAGAT-CTGGGGAGTTGATC
* * *
90800 TATTGAATCGGGGCAGACTTGTTCCACTTACTCTAAAGGGAATACCAAATCTTAGAAAAGAGAGA
1 -ATTGAATCGGGGCAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAAAAGAGAGA
* * * *
90865 CATGTTTCGCTTACTCTGAAGGGAATATTAGATCTAGGGGAGTTGATTC
65 CCTGTTCCGCTTACTCTGAAGGGAAAATCAGATCT-GGGGAGTTGA-TC
* * *
90914 A-TGAATC-GGGCAGACTTGCTCCATTTACTCTGGAA-AGAATATCAAATCTTGGAAAAGAGAGA
1 ATTGAATCGGGGCAGACTTGTTCCACTTACTCT-GAAGGGAATATCAAATCTTGGAAAAGAGAGA
* ***
90976 CCTATTCCGCTTACTCTGAAGGGAAAATCAGATCTGGGGAG-TCCCC
65 CCTGTTCCGCTTACTCTGAAGGGAAAATCAGATCTGGGGAGTTGATC
* * *
91022 ATTGAATC-GGGTAGACTTGTTCCACATACTTTGAAGGGAATATCAAATCTTGGAAAA-A-AGAC
1 ATTGAATCGGGGCAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAAAAGAGAGAC
*
91084 CTGATCCGCTTACTCTGAAGGGAAAAATCAGATCTGGGGGAGTTGATCC
66 CTGTTCCGCTTACTCTGAAGGG-AAAATCAGATCT-GGGGAGTTGAT-C
* *
91133 ATTGAATCGGGGCATACTTG-TCCACTTACTCTGAAGGGATTATCAAATCTTGG-AAAGAGAGAC
1 ATTGAATCGGGGCAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAAAAGAGAGAC
*
91196 CTGTTCCGCTTACTCTCAAGGGAAAATCAGATCTGAGGGAGTTGATC
66 CTGTTCCGCTTACTCTGAAGGGAAAATCAGATCTG-GGGAGTTGATC
*
91243 AATTGAATCGGGGCAGACTTGTTCCATTTACTCTGAAGGGAATATCAAATCTTGGAAAAGAGA
1 -ATTGAATCGGGGCAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAAAAGAGA
91306 TACTTGAAGG
Statistics
Matches: 441, Mismatches: 45, Indels: 37
0.84 0.09 0.07
Matches are distributed among these distances:
107 24 0.05
108 18 0.04
109 52 0.12
110 16 0.04
111 158 0.36
112 98 0.22
113 73 0.17
114 2 0.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.27
Consensus pattern (111 bp):
ATTGAATCGGGGCAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAAAAGAGAGAC
CTGTTCCGCTTACTCTGAAGGGAAAATCAGATCTGGGGAGTTGATC
Found at i:91296 original size:332 final size:333
Alignment explanation
Indices: 90689--91305 Score: 876
Period size: 332 Copynumber: 1.9 Consensus size: 333
90679 CTCAGGGAAA
* * * *
90689 ATTGAATCAGGGTAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGGAAAAGAGGGATA
1 ATTGAATCAGGGTAGACTTGTTCCACTATCACTAAGGGAATATCAAATCTTGGAAAAGAGAGACA
* * * * *
90754 TGTTCCGCTTACTCTGAAGGGAATATCAGATATTGGGGATTTGATCTATTGAATCGGGGCAGACT
66 TGATCCGCTTACTCTGAAGGGAAAATCAGATATGGGGGAGTTGATCCATTGAATCGGGGCAGACT
* *
90819 TGTTCCACTTACTCTAAAGGGAATACCAAATCTTAGAAAAGAGAGACATGTTTCGCTTACTCTGA
131 TGTTCCACTTACTCTAAAGGGAATACCAAATCTTAGAAAAGAGAGACATGTTCCGCTTACTCTCA
* *
90884 AGGGAATATTAGATCTAGGGGAGTTGATTCATGAATCGGGCAGACTTGCTCCATTTACTCTGGAA
196 AGGGAAAATCAGATCTAGGGGAGTTGATTCATGAATCGGGCAGACTTGCTCCATTTACTCTGGAA
90949 AGAATATCAAATCTTGGAAAAGAGAGACCTATTCCGCTTACTCTGAAGGGAAAATCAGATCTGGG
261 AGAATATCAAATCTTGGAAAAGAGAGACCTATTCCGCTTACTCTGAAGGGAAAATCAGATCTGGG
91014 GAGTCCCC
326 GAGTCCCC
91022 ATTGAATC-GGGTAGACTTGTTCCAC-AT-ACTTTGAAGGGAATATCAAATCTTGGAAAA-A-AG
1 ATTGAATCAGGGTAGACTTGTTCCACTATCAC--T-AAGGGAATATCAAATCTTGGAAAAGAGAG
* *
91082 ACCTGATCCGCTTACTCTGAAGGGAAAAATCAGATCTGGGGGAGTTGATCCATTGAATCGGGGCA
63 ACATGATCCGCTTACTCTGAAGGG-AAAATCAGATATGGGGGAGTTGATCCATTGAATCGGGGCA
* * * * * *
91147 TACTTG-TCCACTTACTCTGAAGGGATTATCAAATCTT-GGAAAGAGAGACCTGTTCCGCTTACT
127 GACTTGTTCCACTTACTCTAAAGGGAATACCAAATCTTAGAAAAGAGAGACATGTTCCGCTTACT
*
91210 CTCAAGGGAAAATCAGATCT-GAGGGAGTTGA-TCAATTGAATCGGGGCAGACTTGTTCCATTTA
192 CTCAAGGGAAAATCAGATCTAG-GGGAGTTGATTC-A-TGAATC-GGGCAGACTTGCTCCATTTA
*
91273 CTCT-GAAGGGAATATCAAATCTTGGAAAAGAGA
253 CTCTGGAA-AGAATATCAAATCTTGGAAAAGAGA
91306 TACTTGAAGG
Statistics
Matches: 252, Mismatches: 23, Indels: 19
0.86 0.08 0.06
Matches are distributed among these distances:
329 3 0.01
330 52 0.21
331 60 0.24
332 106 0.42
333 31 0.12
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.27
Consensus pattern (333 bp):
ATTGAATCAGGGTAGACTTGTTCCACTATCACTAAGGGAATATCAAATCTTGGAAAAGAGAGACA
TGATCCGCTTACTCTGAAGGGAAAATCAGATATGGGGGAGTTGATCCATTGAATCGGGGCAGACT
TGTTCCACTTACTCTAAAGGGAATACCAAATCTTAGAAAAGAGAGACATGTTCCGCTTACTCTCA
AGGGAAAATCAGATCTAGGGGAGTTGATTCATGAATCGGGCAGACTTGCTCCATTTACTCTGGAA
AGAATATCAAATCTTGGAAAAGAGAGACCTATTCCGCTTACTCTGAAGGGAAAATCAGATCTGGG
GAGTCCCC
Done.