Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01009197.1 Kokia drynarioides strain JFW-HI SEQ_123902, 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: 84157
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 127 characters in sequence are not A, C, G, or T
Found at i:2371 original size:24 final size:24
Alignment explanation
Indices: 2343--2425 Score: 69
Period size: 24 Copynumber: 3.2 Consensus size: 24
2333 AGGATTTACG
2343 GTATAAACTGCATAAGTAAAATTT
1 GTATAAACTGCATAAGTAAAATTT
* * *
2367 GTATAGAAATG-GTAAGATAGAGGATTT
1 GTATA-AACTGCATAAG-TA-A-AATTT
2394 ACGGTATAAACTGCATAAGTAAAATTT
1 ---GTATAAACTGCATAAGTAAAATTT
2421 GTATA
1 GTATA
2426 GAAATATATT
Statistics
Matches: 45, Mismatches: 6, Indels: 16
0.67 0.09 0.24
Matches are distributed among these distances:
24 14 0.31
25 6 0.13
26 1 0.02
27 8 0.18
28 1 0.02
29 6 0.13
30 9 0.20
ACGTcount: A:0.43, C:0.06, G:0.19, T:0.31
Consensus pattern (24 bp):
GTATAAACTGCATAAGTAAAATTT
Found at i:2389 original size:54 final size:54
Alignment explanation
Indices: 2314--2430 Score: 225
Period size: 54 Copynumber: 2.2 Consensus size: 54
2304 AAATTTATGT
*
2314 TATACAAATGGTAAGATAGAGGATTTACGGTATAAACTGCATAAGTAAAATTTG
1 TATAGAAATGGTAAGATAGAGGATTTACGGTATAAACTGCATAAGTAAAATTTG
2368 TATAGAAATGGTAAGATAGAGGATTTACGGTATAAACTGCATAAGTAAAATTTG
1 TATAGAAATGGTAAGATAGAGGATTTACGGTATAAACTGCATAAGTAAAATTTG
2422 TATAGAAAT
1 TATAGAAAT
2431 ATATTTTTAC
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 62 1.00
ACGTcount: A:0.44, C:0.06, G:0.21, T:0.30
Consensus pattern (54 bp):
TATAGAAATGGTAAGATAGAGGATTTACGGTATAAACTGCATAAGTAAAATTTG
Found at i:2401 original size:30 final size:29
Alignment explanation
Indices: 2314--2403 Score: 84
Period size: 30 Copynumber: 3.2 Consensus size: 29
2304 AAATTTATGT
2314 TATACAAATGGTAAGATAGAGGATTTACGG
1 TATA-AAATGGTAAGATAGAGGATTTACGG
* * *
2344 TATAAACTGCATAAG-TA-A-AATTT---G
1 TATAAAATG-GTAAGATAGAGGATTTACGG
2368 TATAGAAATGGTAAGATAGAGGATTTACGG
1 TATA-AAATGGTAAGATAGAGGATTTACGG
2398 TATAAA
1 TATAAA
2404 CTGCATAAGT
Statistics
Matches: 46, Mismatches: 6, Indels: 17
0.67 0.09 0.25
Matches are distributed among these distances:
24 9 0.20
25 6 0.13
26 1 0.02
27 8 0.17
28 1 0.02
29 8 0.17
30 13 0.28
ACGTcount: A:0.43, C:0.06, G:0.22, T:0.29
Consensus pattern (29 bp):
TATAAAATGGTAAGATAGAGGATTTACGG
Found at i:7139 original size:40 final size:40
Alignment explanation
Indices: 7095--7170 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
7085 GTATATTAGT
* *
7095 ACTACAATGTTTGTATTTTTTTGTATATGTAAATCAATTG
1 ACTACAATATTTGTATTTTTTTGTATACGTAAATCAATTG
* * *
7135 ACTACGATATTTTTATTTTTTTGTATCCGTAAATCA
1 ACTACAATATTTGTATTTTTTTGTATACGTAAATCA
7171 TAATTTTTCT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.50
Consensus pattern (40 bp):
ACTACAATATTTGTATTTTTTTGTATACGTAAATCAATTG
Found at i:7273 original size:83 final size:85
Alignment explanation
Indices: 7174--7346 Score: 260
Period size: 84 Copynumber: 2.1 Consensus size: 85
7164 TAAATCATAA
** * *
7174 TTTTTCTTCGAATTTTTTTCGTATATCAGTTGACTACAATGTTCGTA-TTTTTTGTATATGTAAA
1 TTTTTCTTCGAATTTTTTTCGTATATCAAATGACTACAATGTTCGTATTTTTTTGAATATCTAAA
*
7238 TCAATTTTGGTCCGTATTAT
66 TCAATTTTGGTCCATATTAT
* * *
7258 TTTTTCTT-TAATTTTTTTCGTATATCAAATGACTACAATGTTTGTATTTTTTTGAATCTCTAAA
1 TTTTTCTTCGAATTTTTTTCGTATATCAAATGACTACAATGTTCGTATTTTTTTGAATATCTAAA
7322 TCAATTTTGGTCCATATTAT
66 TCAATTTTGGTCCATATTAT
7342 TTTTT
1 TTTTT
7347 TCAAATTTTA
Statistics
Matches: 80, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
83 34 0.43
84 46 0.57
ACGTcount: A:0.24, C:0.12, G:0.10, T:0.54
Consensus pattern (85 bp):
TTTTTCTTCGAATTTTTTTCGTATATCAAATGACTACAATGTTCGTATTTTTTTGAATATCTAAA
TCAATTTTGGTCCATATTAT
Found at i:7354 original size:83 final size:82
Alignment explanation
Indices: 7173--7355 Score: 249
Period size: 83 Copynumber: 2.2 Consensus size: 82
7163 GTAAATCATA
* ** * *
7173 ATTTTTCTTCGAATTTTTTTCGTATATCAGTTGACTACAATGTTCGTATTTTTTGTATATGTAAA
1 ATTTTT-TTCAAATTTTTTTCGTATATCAAATGACTACAATGTTCGTATTTTTTGAATATCTAAA
*
7238 TCAATTTTGGTCCGTATT
65 TCAATTTTGGTCCATATT
** * *
7256 ATTTTTTCTTTAATTTTTTTCGTATATCAAATGACTACAATGTTTGTATTTTTTTGAATCTCTAA
1 ATTTTTT-TCAAATTTTTTTCGTATATCAAATGACTACAATGTTCGTA-TTTTTTGAATATCTAA
7321 ATCAATTTTGGTCCATATT
64 ATCAATTTTGGTCCATATT
7340 ATTTTTTTCAAATTTT
1 ATTTTTTTCAAATTTT
7356 ATATTTTTTG
Statistics
Matches: 87, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
82 1 0.01
83 48 0.55
84 38 0.44
ACGTcount: A:0.25, C:0.11, G:0.10, T:0.54
Consensus pattern (82 bp):
ATTTTTTTCAAATTTTTTTCGTATATCAAATGACTACAATGTTCGTATTTTTTGAATATCTAAAT
CAATTTTGGTCCATATT
Found at i:8065 original size:38 final size:38
Alignment explanation
Indices: 8014--8234 Score: 140
Period size: 40 Copynumber: 5.4 Consensus size: 38
8004 AATAATTTCT
8014 ATTAAATTATATTTTATTTAAAACTCTTTTAAATAATA
1 ATTAAATTATATTTTATTTAAAACTCTTTTAAATAATA
* *
8052 ATTAAATTCTATTTTAATTATCATTTATCTATAACTCTTTTAAATAACA
1 ATTAAA-T-TA---T-ATT-TTATTTA---A-AACTCTTTTAAATAATA
* * * * *
8101 ATATAATTTTTA-TTTATCTAAAACTCTTTTAATTAAATTTCT
1 AT-TAAATTATATTTTATTTAAAACTCTTTTAAAT-AA--T-A
* *
8143 ATTTAATTATTTTTTATTTAAAACTCTTTTAAATAATA
1 ATTAAATTATATTTTATTTAAAACTCTTTTAAATAATA
* *
8181 ATAATAAAATTTTA-TTTATCTAAAACTCTTTTAAATAATA
1 AT--T-AAATTATATTTTATTTAAAACTCTTTTAAATAATA
* *
8221 CTTAAATTCTATTT
1 ATTAAATTATATTT
8235 CCTTTTCTAA
Statistics
Matches: 140, Mismatches: 22, Indels: 42
0.69 0.11 0.21
Matches are distributed among these distances:
37 7 0.05
38 23 0.16
39 5 0.04
40 29 0.21
41 12 0.09
42 27 0.19
43 2 0.01
44 4 0.03
45 7 0.05
48 2 0.01
49 19 0.14
50 3 0.02
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (38 bp):
ATTAAATTATATTTTATTTAAAACTCTTTTAAATAATA
Found at i:8089 original size:49 final size:44
Alignment explanation
Indices: 7989--8220 Score: 193
Period size: 49 Copynumber: 5.4 Consensus size: 44
7979 TTAAATTTTA
* *
7989 AAAATTCTTTTAAATAATAATTTCTATTAAATTATATTTTATTT
1 AAAACTCTTTTAAATAATAATTTCTATTAAATTATATTTTATCT
*
8033 AAAACTCTTTTAAATAATAATTAAATTCTATTTTAATTATCA-TTTATCT
1 AAAACTCTTTTAAATAATAA-T---TTCTA-TTAAATTAT-ATTTTATCT
* * * *
8082 ATAACTCTTTTAAATAACAA----TA-TAATTTTTA-TTTATCT
1 AAAACTCTTTTAAATAATAATTTCTATTAAATTATATTTTATCT
* * * *
8120 AAAACTCTTTT-AATTA-AATTTCTATTTAATTATTTTTTATTT
1 AAAACTCTTTTAAATAATAATTTCTATTAAATTATATTTTATCT
* * *
8162 AAAACTCTTTTAAATAATAA--T-AATAAAATTTTA-TTTATCT
1 AAAACTCTTTTAAATAATAATTTCTATTAAATTATATTTTATCT
8202 AAAACTCTTTTAAATAATA
1 AAAACTCTTTTAAATAATA
8221 CTTAAATTCT
Statistics
Matches: 152, Mismatches: 22, Indels: 32
0.74 0.11 0.16
Matches are distributed among these distances:
36 2 0.01
37 4 0.03
38 18 0.12
39 5 0.03
40 27 0.18
41 14 0.09
42 18 0.12
43 4 0.03
44 21 0.14
45 1 0.01
48 5 0.03
49 32 0.21
50 1 0.01
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.50
Consensus pattern (44 bp):
AAAACTCTTTTAAATAATAATTTCTATTAAATTATATTTTATCT
Found at i:8138 original size:80 final size:82
Alignment explanation
Indices: 8050--8214 Score: 246
Period size: 80 Copynumber: 2.0 Consensus size: 82
8040 TTTTAAATAA
* *
8050 TAATTAAA-TTCTATTTTAATTATCATTTATCTATAACTCTTTTAAATAACAAT-AT-AATTTTT
1 TAATTAAATTTCTA-TTTAATTATCATTTATCTAAAACTCTTTTAAATAACAATAATAAAATTTT
8112 ATTTATCTAAAACTCTTT
65 ATTTATCTAAAACTCTTT
** * *
8130 TAATTAAATTTCTATTTAATTATTTTTTATTTAAAACTCTTTTAAATAATAATAATAAAATTTTA
1 TAATTAAATTTCTATTTAATTATCATTTATCTAAAACTCTTTTAAATAACAATAATAAAATTTTA
8195 TTTATCTAAAACTCTTT
66 TTTATCTAAAACTCTTT
8212 TAA
1 TAA
8215 ATAATACTTA
Statistics
Matches: 76, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
80 42 0.55
81 7 0.09
82 27 0.36
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52
Consensus pattern (82 bp):
TAATTAAATTTCTATTTAATTATCATTTATCTAAAACTCTTTTAAATAACAATAATAAAATTTTA
TTTATCTAAAACTCTTT
Found at i:8150 original size:42 final size:40
Alignment explanation
Indices: 8056--8219 Score: 163
Period size: 40 Copynumber: 4.1 Consensus size: 40
8046 ATAATAATTA
* * *
8056 AATTCTATTTTAATTATCATTTATCTATAACTCTTTTAAAT
1 AATTCTA-TTTAATTTTTATTTATCTAAAACTCTTTTAAAT
* * *
8097 AA--CAATATAATTTTTATTTATCTAAAACTCTTTTAATT
1 AATTCTATTTAATTTTTATTTATCTAAAACTCTTTTAAAT
*
8135 AAATTTCTATTTAATTATTT-TTTATTTAAAACTCTTTTAAAT
1 -AA-TTCTATTTAATT-TTTATTTATCTAAAACTCTTTTAAAT
** * * *
8177 AATAATAATAAAATTTTATTTATCTAAAACTCTTTTAAAT
1 AATTCTATTTAATTTTTATTTATCTAAAACTCTTTTAAAT
8217 AAT
1 AAT
8220 ACTTAAATTC
Statistics
Matches: 101, Mismatches: 16, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
38 28 0.28
39 7 0.07
40 31 0.31
41 4 0.04
42 28 0.28
43 3 0.03
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (40 bp):
AATTCTATTTAATTTTTATTTATCTAAAACTCTTTTAAAT
Found at i:8375 original size:94 final size:93
Alignment explanation
Indices: 8188--8362 Score: 228
Period size: 94 Copynumber: 1.9 Consensus size: 93
8178 ATAATAATAA
* * * *
8188 AATT-TTATTTATCTAAAACTCTTTTAAATAATACTTAAATTCTATTTCCTTTTCTAATAAGGAA
1 AATTATTACTTATCTAAAACTCTTTTAAATAATAATTAAATTCTATTTCCTTTTCCAATAAAGAA
* *
8252 TATATCAAATCCTTTTGATTTTGAAATTT
66 TATATCAAAACCTTTT-ATTTTCAAATTT
* * *
8281 AATTATTACTTATCTAAAATTCTTTTAAATAATAATTAAATTTTATTT-CTTTATCCGATAAAGA
1 AATTATTACTTATCTAAAACTCTTTTAAATAATAATTAAATTCTATTTCCTTT-TCCAATAAAGA
8345 ATATATCAAACACCTTTT
65 ATATATCAAA-ACCTTTT
8363 TTTATCTCAT
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
93 8 0.11
94 57 0.80
95 6 0.08
ACGTcount: A:0.38, C:0.12, G:0.03, T:0.47
Consensus pattern (93 bp):
AATTATTACTTATCTAAAACTCTTTTAAATAATAATTAAATTCTATTTCCTTTTCCAATAAAGAA
TATATCAAAACCTTTTATTTTCAAATTT
Found at i:11091 original size:18 final size:18
Alignment explanation
Indices: 11068--11103 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
11058 GAGGTGAAAT
11068 GTGTGGGTCTCTGGCGCC
1 GTGTGGGTCTCTGGCGCC
11086 GTGTGGGTCTCTGGCGCC
1 GTGTGGGTCTCTGGCGCC
11104 ATTGTTCCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.28, G:0.44, T:0.28
Consensus pattern (18 bp):
GTGTGGGTCTCTGGCGCC
Found at i:11967 original size:13 final size:14
Alignment explanation
Indices: 11937--11969 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
11927 ATTTGTAATT
*
11937 AATTTTTTTTTACC
1 AATTTTTTTTTACA
11951 AATTTTTTTTTA-A
1 AATTTTTTTTTACA
11964 AATTTT
1 AATTTT
11970 GTAAAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (14 bp):
AATTTTTTTTTACA
Found at i:12067 original size:28 final size:27
Alignment explanation
Indices: 12029--12168 Score: 81
Period size: 28 Copynumber: 4.8 Consensus size: 27
12019 AAAACATTGT
12029 TTTTTTTTCAACATTAAAATTTTGATA
1 TTTTTTTTCAACATTAAAATTTTGATA
*
12056 TTTTTTATTCAAACTTTTAAAAAACTTTT--T-
1 TTTTTT-TTC-AAC-ATT--AAAA-TTTTGATA
*
12086 TTGTTTTTCAACATTAAAATTTTGATA
1 TTTTTTTTCAACATTAAAATTTTGATA
* * *
12113 TTAATTTTTTAATCAAACTTTAAAAAACTTTG-TT
1 -T--TTTTTT--TC-AACATT--AAAATTTTGATA
12147 TTTTTTTTCAACATTAAAATTT
1 TTTTTTTTCAACATTAAAATTT
12169 AGATTTAAAA
Statistics
Matches: 87, Mismatches: 9, Indels: 35
0.66 0.07 0.27
Matches are distributed among these distances:
24 4 0.05
25 4 0.05
26 7 0.08
27 8 0.09
28 12 0.14
29 8 0.09
30 12 0.14
31 7 0.08
32 6 0.07
33 10 0.11
34 1 0.01
35 8 0.09
ACGTcount: A:0.34, C:0.09, G:0.03, T:0.54
Consensus pattern (27 bp):
TTTTTTTTCAACATTAAAATTTTGATA
Found at i:12129 original size:61 final size:59
Alignment explanation
Indices: 12016--12176 Score: 215
Period size: 61 Copynumber: 2.7 Consensus size: 59
12006 TTAATACTAA
* *
12016 TAAAAAACATTGTTTTTTTTTCAACATTAAAATTTTG--A-T-ATTTTTTATTCAAACTTT
1 TAAAAAAC-TTTTTTTTTTTTCAACATTAAAATTTTGATATTAATTTTTTAATCAAAC-TT
12073 TAAAAAACTTTTTTTGTTTTTCAACATTAAAATTTTGATATTAATTTTTTAATCAAACTT
1 TAAAAAACTTTTTTT-TTTTTCAACATTAAAATTTTGATATTAATTTTTTAATCAAACTT
*
12133 TAAAAAACTTTGTTTTTTTTTTCAACATTAAAATTTAGAT-TTAA
1 TAAAAAAC-TT-TTTTTTTTTTCAACATTAAAATTTTGATATTAA
12177 AATTTTCACA
Statistics
Matches: 94, Mismatches: 3, Indels: 11
0.87 0.03 0.10
Matches are distributed among these distances:
56 6 0.06
57 29 0.31
59 1 0.01
60 15 0.16
61 38 0.40
62 5 0.05
ACGTcount: A:0.37, C:0.08, G:0.04, T:0.52
Consensus pattern (59 bp):
TAAAAAACTTTTTTTTTTTTCAACATTAAAATTTTGATATTAATTTTTTAATCAAACTT
Found at i:17175 original size:56 final size:57
Alignment explanation
Indices: 17048--17177 Score: 156
Period size: 56 Copynumber: 2.3 Consensus size: 57
17038 TATGAATGGT
* * * * *
17048 GAAAATTGAGAAATGAGAAACATTTGGAAATGATTATGGTTTTCTCCAAAATGAAAAT
1 GAAAAATGAGAAATGA-AAACATTTGGAAATAAATATGGTTTTCTCCAAAATAAAAAA
* * * *
17106 G-AAAAGGAGAAATGAAATCATTTTGAAATAAATGTGGTTTTCTCCAAAATAAAAAA
1 GAAAAATGAGAAATGAAAACATTTGGAAATAAATATGGTTTTCTCCAAAATAAAAAA
17162 GAAAAATGA-AAATGAA
1 GAAAAATGAGAAATGAA
17178 TTAGAAATGA
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
56 42 0.69
57 18 0.30
58 1 0.02
ACGTcount: A:0.50, C:0.06, G:0.18, T:0.26
Consensus pattern (57 bp):
GAAAAATGAGAAATGAAAACATTTGGAAATAAATATGGTTTTCTCCAAAATAAAAAA
Found at i:22399 original size:34 final size:34
Alignment explanation
Indices: 22356--22425 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
22346 CCATTTTAGG
22356 ATTATCAAAATAAAATAATCCCTTTAGCTAGCCT
1 ATTATCAAAATAAAATAATCCCTTTAGCTAGCCT
* *
22390 ATTATCAAAATAAAATAATCCTTTTAGCTAGTCT
1 ATTATCAAAATAAAATAATCCCTTTAGCTAGCCT
22424 AT
1 AT
22426 GAGTATTTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.41, C:0.17, G:0.06, T:0.36
Consensus pattern (34 bp):
ATTATCAAAATAAAATAATCCCTTTAGCTAGCCT
Found at i:23981 original size:22 final size:22
Alignment explanation
Indices: 23946--23988 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
23936 TTCGAAACCT
* *
23946 GAAAAAGTAAAGAAAGTAAAGA
1 GAAAAACTAAAGAAAGGAAAGA
*
23968 GAAAAACTAGAGAAAGGAAAG
1 GAAAAACTAAAGAAAGGAAAG
23989 GATTTCTAGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.65, C:0.02, G:0.26, T:0.07
Consensus pattern (22 bp):
GAAAAACTAAAGAAAGGAAAGA
Found at i:38081 original size:50 final size:50
Alignment explanation
Indices: 38006--38108 Score: 206
Period size: 50 Copynumber: 2.1 Consensus size: 50
37996 TGTCAATGCA
38006 AATACTATAAACTGTAACATTAAATGTCAAGACAATTTAATTAAAAAATG
1 AATACTATAAACTGTAACATTAAATGTCAAGACAATTTAATTAAAAAATG
38056 AATACTATAAACTGTAACATTAAATGTCAAGACAATTTAATTAAAAAATG
1 AATACTATAAACTGTAACATTAAATGTCAAGACAATTTAATTAAAAAATG
38106 AAT
1 AAT
38109 TGAATATTGA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.52, C:0.10, G:0.08, T:0.30
Consensus pattern (50 bp):
AATACTATAAACTGTAACATTAAATGTCAAGACAATTTAATTAAAAAATG
Found at i:42021 original size:48 final size:48
Alignment explanation
Indices: 41966--42061 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
41956 GAAGACAAGG
*
41966 TATGGATGATTCGAGACTATTTGAAAGTAGCGTCCGATTGATAGAAGT
1 TATGGATGATTCAAGACTATTTGAAAGTAGCGTCCGATTGATAGAAGT
42014 TATGGATGATTCAAGACTATTTGAAAGTAGCGTCCGATTGATAGAAGT
1 TATGGATGATTCAAGACTATTTGAAAGTAGCGTCCGATTGATAGAAGT
42062 CTTATGCAGA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.32, C:0.10, G:0.26, T:0.31
Consensus pattern (48 bp):
TATGGATGATTCAAGACTATTTGAAAGTAGCGTCCGATTGATAGAAGT
Found at i:44595 original size:105 final size:105
Alignment explanation
Indices: 44414--44624 Score: 395
Period size: 105 Copynumber: 2.0 Consensus size: 105
44404 ATAATCCCTT
*
44414 TAGCTAGCTTATTAGTATTTTCATTCTTTTTATTCTTTGAGTAAGATTTATTTCTTTTTCGTCTT
1 TAGCTAGCCTATTAGTATTTTCATTCTTTTTATTCTTTGAGTAAGATTTATTTCTTTTTCGTCTT
*
44479 ATTGGTGACCTTATAATTCTGTCACTATTCACATGTTGTC
66 ATTGATGACCTTATAATTCTGTCACTATTCACATGTTGTC
*
44519 TAGCTAGCCTATTAGTATTTTCATTCTTTTTATTCTTTGAGTAAGATTTCTTTCTTTTTCGTCTT
1 TAGCTAGCCTATTAGTATTTTCATTCTTTTTATTCTTTGAGTAAGATTTATTTCTTTTTCGTCTT
44584 ATTGATGACCTTATAATTCTGTCACTATTCACATGTTGTC
66 ATTGATGACCTTATAATTCTGTCACTATTCACATGTTGTC
44624 T
1 T
44625 TACTCTTACT
Statistics
Matches: 103, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
105 103 1.00
ACGTcount: A:0.20, C:0.16, G:0.12, T:0.52
Consensus pattern (105 bp):
TAGCTAGCCTATTAGTATTTTCATTCTTTTTATTCTTTGAGTAAGATTTATTTCTTTTTCGTCTT
ATTGATGACCTTATAATTCTGTCACTATTCACATGTTGTC
Found at i:45962 original size:60 final size:60
Alignment explanation
Indices: 45885--46235 Score: 510
Period size: 60 Copynumber: 5.8 Consensus size: 60
45875 ATTGCAAAAA
* *
45885 GGTCTGATGACTTTGTGTCATCATGAGTATTAAATGAAATGAATCCTTTACAGATTATAT
1 GGTCTGATGACTATGTGTCATCGTGAGTATTAAATGAAATGAATCCTTTACAGATTATAT
45945 GGTCTGATGACTATGTGTCATCGTGAGTATTAAATGAAATGAATCCTTTACAGATTATAT
1 GGTCTGATGACTATGTGTCATCGTGAGTATTAAATGAAATGAATCCTTTACAGATTATAT
* * * *
46005 GGTCCGATGATTATGTGTCATCATGAGTATTCAATGAAAT-AATCCTTTACAGATTATAT
1 GGTCTGATGACTATGTGTCATCGTGAGTATTAAATGAAATGAATCCTTTACAGATTATAT
* *
46064 GGT-TCGATAACTATGTGTCATTGTGAGTATTAAATGAAATGAATCCTTTAC-GTATTATAT
1 GGTCT-GATGACTATGTGTCATCGTGAGTATTAAATGAAATGAATCCTTTACAG-ATTATAT
* * * * *
46124 GGTTTTAATGACTATGTGTTATCGTGAGTATTAAATGAAATGAATCCTTTACGGATTATAA
1 GG-TCTGATGACTATGTGTCATCGTGAGTATTAAATGAAATGAATCCTTTACAGATTATAT
*
46185 GGTCTGATGACTATGTGTCATCGTGAGTATTAAATTAGAAAAGAATCCTTT
1 GGTCTGATGACTATGTGTCATCGTGAGTATTAAA-T-GAAATGAATCCTTT
46236 TATGGATTAA
Statistics
Matches: 262, Mismatches: 21, Indels: 14
0.88 0.07 0.05
Matches are distributed among these distances:
59 53 0.20
60 142 0.54
61 52 0.20
62 15 0.06
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (60 bp):
GGTCTGATGACTATGTGTCATCGTGAGTATTAAATGAAATGAATCCTTTACAGATTATAT
Found at i:62261 original size:65 final size:62
Alignment explanation
Indices: 62180--62334 Score: 175
Period size: 65 Copynumber: 2.4 Consensus size: 62
62170 NNNNNNNNNN
* * * * *
62180 AAAAAAAAAAAAAAAAAAAAAAAGAGGGTCAAGATGGAAACCCGCAAAGGGCATCTTGAAACCC
1 AAAAAAGAAAAAAAAAAGAAAAAGA--GTCAAGATGAAAACCCGCAAACGGCATCCTGAAACCC
* * *
62244 AAAGAAAGAAAAGAAAAAAGGAAAAAGAGTCGAGATGAAAACTCGCAAACTGCATCCTGAAACCC
1 AAA-AAAGAAAA-AAAAAA-GAAAAAGAGTCAAGATGAAAACCCGCAAACGGCATCCTGAAACCC
*
62309 AAAAAGGAAAAAAAAAAGAGAAAAGA
1 AAAAAAGAAAAAAAAAAGA-AAAAGA
62335 AAGAAAAACT
Statistics
Matches: 78, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
62 2 0.03
63 12 0.15
64 10 0.13
65 41 0.53
66 6 0.08
67 7 0.09
ACGTcount: A:0.60, C:0.14, G:0.19, T:0.07
Consensus pattern (62 bp):
AAAAAAGAAAAAAAAAAGAAAAAGAGTCAAGATGAAAACCCGCAAACGGCATCCTGAAACCC
Found at i:63200 original size:16 final size:16
Alignment explanation
Indices: 63176--63228 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
63166 AATTCAACGC
*
63176 AAAATAAAAAAAGAAG
1 AAAAGAAAAAAAGAAG
63192 AAAAGAAAAAAATG-AG
1 AAAAGAAAAAAA-GAAG
63208 AAAAAGAATAAAAA-AAG
1 -AAAAGAA-AAAAAGAAG
63225 AAAA
1 AAAA
63229 AATGAGAAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
16 17 0.53
17 10 0.31
18 5 0.16
ACGTcount: A:0.81, C:0.00, G:0.13, T:0.06
Consensus pattern (16 bp):
AAAAGAAAAAAAGAAG
Found at i:63222 original size:27 final size:27
Alignment explanation
Indices: 63192--63252 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
63182 AAAAAAGAAG
63192 AAAAGA-AAAAAATGAGAAA-AAGAATAA
1 AAAAGAGAAAAAATGAGAAAGAA-AA-AA
63219 AAAA-AGAAAAAATGAGAAAGAAAAAA
1 AAAAGAGAAAAAATGAGAAAGAAAAAA
63245 AAAAGAGA
1 AAAAGAGA
63253 GCTCGAGATG
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
26 7 0.23
27 22 0.71
28 2 0.06
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (27 bp):
AAAAGAGAAAAAATGAGAAAGAAAAAA
Found at i:63229 original size:17 final size:17
Alignment explanation
Indices: 63178--63229 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 17
63168 TTCAACGCAA
63178 AATAAAAAAAGAAGAAAAG
1 AATAAAAAAAG-A-AAAAG
*
63197 AA-AAAAATGAGAAAAAG
1 AATAAAAA-AAGAAAAAG
63214 AATAAAAAAAGAAAAA
1 AATAAAAAAAGAAAAA
63230 ATGAGAAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
17 14 0.48
18 11 0.38
19 4 0.14
ACGTcount: A:0.81, C:0.00, G:0.13, T:0.06
Consensus pattern (17 bp):
AATAAAAAAAGAAAAAG
Found at i:63238 original size:25 final size:26
Alignment explanation
Indices: 63192--63250 Score: 84
Period size: 25 Copynumber: 2.2 Consensus size: 26
63182 AAAAAAGAAG
*
63192 AAAAGAAAAAAATGAGAAAAAGAATAAA
1 AAAAG-AAAAAATGAG-AAAAGAAAAAA
63220 AAAAGAAAAAATGAG-AAAGAAAAAA
1 AAAAGAAAAAATGAGAAAAGAAAAAA
63245 AAAAGA
1 AAAAGA
63251 GAGCTCGAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 15 0.50
27 10 0.33
28 5 0.17
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (26 bp):
AAAAGAAAAAATGAGAAAAGAAAAAA
Found at i:65454 original size:78 final size:78
Alignment explanation
Indices: 65352--65556 Score: 227
Period size: 78 Copynumber: 2.6 Consensus size: 78
65342 CTATATAATT
* * *
65352 ATCAGCTCGAAGCCTGCTAATTATTCACCGGCTTAAAG-CCTGCTATTTATTCACCGGCTCGATG
1 ATCAGCTCGAAGCCTGCTAATTATTCACCGGC-TAAAGTCCTGCTATATACTCACCGGCTCGAAG
*
65416 CCTACTATTTATTC
65 CCTACTAATTATTC
* * *
65430 ATCAGCTC-AAGGCCTGTTAATTATTCACCGGCTCAAGTCTTGCTATATACTCACCGGCTCGAAG
1 ATCAGCTCGAA-GCCTGCTAATTATTCACCGGCTAAAGTCCTGCTATATACTCACCGGCTCGAAG
*
65494 CCTGCTAATTATTC
65 CCTACTAATTATTC
* * * * * * *
65508 A-CCGACTCGAAGCCTACTATTTATTCACCGACTCAAGGCCTTCTATATA
1 ATCAG-CTCGAAGCCTGCTAATTATTCACCGGCTAAAGTCCTGCTATATA
65557 ATTGTTTATG
Statistics
Matches: 107, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
77 8 0.07
78 97 0.91
79 2 0.02
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.31
Consensus pattern (78 bp):
ATCAGCTCGAAGCCTGCTAATTATTCACCGGCTAAAGTCCTGCTATATACTCACCGGCTCGAAGC
CTACTAATTATTC
Found at i:65541 original size:26 final size:26
Alignment explanation
Indices: 65356--65537 Score: 197
Period size: 26 Copynumber: 7.0 Consensus size: 26
65346 ATAATTATCA
*
65356 GCTCGAAGCCTGCTAATTATTCACCG
1 GCTCGAAGCCTGCTATTTATTCACCG
**
65382 GCTTAAAGCCTGCTATTTATTCACCG
1 GCTCGAAGCCTGCTATTTATTCACCG
* * * *
65408 GCTCGATGCCTACTATTTATTCATCA
1 GCTCGAAGCCTGCTATTTATTCACCG
* *
65434 GCTC-AAGGCCTGTTAATTATTCACCG
1 GCTCGAA-GCCTGCTATTTATTCACCG
* * *
65460 GCTC-AAGTCTTGCTATATACTCACCG
1 GCTCGAAG-CCTGCTATTTATTCACCG
*
65486 GCTCGAAGCCTGCTAATTATTCACCG
1 GCTCGAAGCCTGCTATTTATTCACCG
* *
65512 ACTCGAAGCCTACTATTTATTCACCG
1 GCTCGAAGCCTGCTATTTATTCACCG
65538 ACTCAAGGCC
Statistics
Matches: 126, Mismatches: 27, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
25 2 0.02
26 121 0.96
27 3 0.02
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (26 bp):
GCTCGAAGCCTGCTATTTATTCACCG
Found at i:66774 original size:49 final size:49
Alignment explanation
Indices: 66717--67695 Score: 921
Period size: 49 Copynumber: 20.1 Consensus size: 49
66707 GGGTCGTTAC
* * ** * * *
66717 AGATGTGGAGGAAAAGATTGAAGTCATTACGGTGAATCTTATACCTTAG
1 AGATGTGGAGGGAAAGATTGAAGCCACAAAGGCGAATCTTATACCCTAG
* * * *
66766 AGATGTGGAGGGAAAGATTGAAGCCGCTAGGGTGAATCTTATACCCTAG
1 AGATGTGGAGGGAAAGATTGAAGCCACAAAGGCGAATCTTATACCCTAG
* * * * *
66815 AGATGTGGA-GGAAAGATTGAAACCGCTAGGGCGAATCTTATACCTTAG
1 AGATGTGGAGGGAAAGATTGAAGCCACAAAGGCGAATCTTATACCCTAG
* * * *
66863 AGATGTGGAGGGAAAGATTGAAGTCGCAAAGGCAAATCTTATGCCCTAG
1 AGATGTGGAGGGAAAGATTGAAGCCACAAAGGCGAATCTTATACCCTAG
* *
66912 AGATGTGGAGGGAAAGATTG-AGACCACAAAGGCGAATCTTATGCCCTAC
1 AGATGTGGAGGGAAAGATTGAAG-CCACAAAGGCGAATCTTATACCCTAG
* ** *
66961 AAATGTGGAGGGAAAGATTGAAGCCGTAATA-GTGAATCTTATACCCTAG
1 AGATGTGGAGGGAAAGATTGAAGCCACAA-AGGCGAATCTTATACCCTAG
* *
67010 AGATGTGGAGGGAAAGATTGAAGTCA-TAAGGTCGAATCTTATACCCTAG
1 AGATGTGGAGGGAAAGATTGAAGCCACAAAGG-CGAATCTTATACCCTAG
* * * * *
67059 AGATGTGGAAGGAAAGATTGAAGCCTC-AAGGTCGAATTTTACACCGTAG
1 AGATGTGGAGGGAAAGATTGAAGCCACAAAGG-CGAATCTTATACCCTAG
* * * * * *
67108 AGATGTGTAGGTAAATATTTAAGCCTCAAAGGCGAATCTTATACCTTAG
1 AGATGTGGAGGGAAAGATTGAAGCCACAAAGGCGAATCTTATACCCTAG
* * ** * *
67157 AGATGTGGAGGAAAACATTG-AGACTGCGAAGGCAAATCTTATACCCTAG
1 AGATGTGGAGGGAAAGATTGAAG-CCACAAAGGCGAATCTTATACCCTAG
* * ** *
67206 AGATGTGGAGGGAAAGACTGAGGCTGCAAAGACGAATCTTATACCCTAG
1 AGATGTGGAGGGAAAGATTGAAGCCACAAAGGCGAATCTTATACCCTAG
* * * * * *
67255 AGATGTGAAGGTAAAGATTAAAGTCGCAAAGGC-AATTCTTATACCATAG
1 AGATGTGGAGGGAAAGATTGAAGCCACAAAGGCGAA-TCTTATACCCTAG
* * * ** * * *
67304 AGATGT----GGAATGATTGGAGCCGCAAAGGAAAATGTTAGAGCCTAG
1 AGATGTGGAGGGAAAGATTGAAGCCACAAAGGCGAATCTTATACCCTAG
* * * *
67349 AGATGTGAAGGGAAACATTGAAGCCGA-AAAGACAAATCTTATACCCTAG
1 AGATGTGGAGGGAAAGATTGAAGCC-ACAAAGGCGAATCTTATACCCTAG
* *
67398 AGATGTGAAGGGAAAGATTGAAGCCGC-AAGAGCGAATCTTATA-CCTAG
1 AGATGTGGAGGGAAAGATTGAAGCCACAAAG-GCGAATCTTATACCCTAG
* * *
67446 AGATGTGGAGGGAAAGACTGAAGCCGCAAAGGTGAATCTTATACCCTAG
1 AGATGTGGAGGGAAAGATTGAAGCCACAAAGGCGAATCTTATACCCTAG
* * * * *
67495 AGATGTAGAGGGAAAGATTGAGGCCGCAAAGGCAAATCTTATACCTTAG
1 AGATGTGGAGGGAAAGATTGAAGCCACAAAGGCGAATCTTATACCCTAG
* *
67544 AGATGTGGAGGGAAAGATT-AAGGTCACAAAGGCTAATCTTATACCCTAG
1 AGATGTGGAGGGAAAGATTGAA-GCCACAAAGGCGAATCTTATACCCTAG
* * *
67593 AGATGTGGAGGGAAAGAAT-AAGGCCACAAAGGCGAATCTTATATCCTAA
1 AGATGTGGAGGGAAAGATTGAA-GCCACAAAGGCGAATCTTATACCCTAG
* * * * * * * *
67642 AGATGTAGAGAGG-CAGTTTGAAGTCGCAAAGGCAAATCTTATACTCTAA
1 AGATGTGGAG-GGAAAGATTGAAGCCACAAAGGCGAATCTTATACCCTAG
67691 AGATG
1 AGATG
67696 AAGAGGGGCA
Statistics
Matches: 784, Mismatches: 122, Indels: 48
0.82 0.13 0.05
Matches are distributed among these distances:
45 32 0.04
46 2 0.00
47 1 0.00
48 98 0.12
49 639 0.82
50 12 0.02
ACGTcount: A:0.36, C:0.14, G:0.28, T:0.22
Consensus pattern (49 bp):
AGATGTGGAGGGAAAGATTGAAGCCACAAAGGCGAATCTTATACCCTAG
Found at i:67706 original size:49 final size:49
Alignment explanation
Indices: 66751--67811 Score: 503
Period size: 49 Copynumber: 21.8 Consensus size: 49
66741 CATTACGGTG
* * * ** * * **
66751 AATCTTATACCTTAGAGATGTGGAGGGAAAGATTGAAGCCGCTAGGGTG
1 AATCTTATACCCTAAAGATGTAGAGGGGCAGATTGAAGCCGCAAAGGCA
* * ** * * * *
66800 AATCTTATACCCTAGAGATGTGGA-GGAAAGATTGAAACCGCTAGGGCG
1 AATCTTATACCCTAAAGATGTAGAGGGGCAGATTGAAGCCGCAAAGGCA
* * * ** *
66848 AATCTTATACCTTAGAGATGTGGAGGGAAAGATTGAAGTCGCAAAGGCA
1 AATCTTATACCCTAAAGATGTAGAGGGGCAGATTGAAGCCGCAAAGGCA
* * * ** * *
66897 AATCTTATGCCCTAGAGATGTGGAGGGAAAGATTG-AGACCACAAAGGCG
1 AATCTTATACCCTAAAGATGTAGAGGGGCAGATTGAAG-CCGCAAAGGCA
* * ** *
66946 AATCTTATGCCCTACAA-ATGTGGAGGGAAAGATTGAAGCCGTAATAGTG--
1 AATCTTATACCCTA-AAGATGTAGAGGGGCAGATTGAAGCCGCAA-AG-GCA
* * ** * *
66995 AATCTTATACCCTAGAGATGTGGAGGGAAAGATTGAAG--TCATAAGGTCG
1 AATCTTATACCCTAAAGATGTAGAGGGGCAGATTGAAGCCGCA-AAGG-CA
* * * ** * *
67044 AATCTTATACCCTAGAGATGTGGAAGGAAAGATTGAAGCCTC-AAGGTCG
1 AATCTTATACCCTAAAGATGTAGAGGGGCAGATTGAAGCCGCAAAGG-CA
* * * * *** * * * *
67093 AATTTTACACCGTAGAGATGT-GTAGGTAAATATTTAAGCCTCAAAGGCG
1 AATCTTATACCCTAAAGATGTAG-AGGGGCAGATTGAAGCCGCAAAGGCA
* * * *** * * *
67142 AATCTTATACCTTAGAGATGTGGAGGAAAACATTG-AGACTGCGAAGGCA
1 AATCTTATACCCTAAAGATGTAGAGGGGCAGATTGAAG-CCGCAAAGGCA
* * ** * * * * *
67191 AATCTTATACCCTAGAGATGTGGAGGGAAAGACTGAGGCTGCAAAGACG
1 AATCTTATACCCTAAAGATGTAGAGGGGCAGATTGAAGCCGCAAAGGCA
* *** * *
67240 AATCTTATACCCTAGAGATGT-GAAGGTAAAGATTAAAGTCGCAAAGGCA
1 AATCTTATACCCTAAAGATGTAG-AGGGGCAGATTGAAGCCGCAAAGGCA
* * * * * *
67289 ATTCTTATACCATAGAGATGT-----GGAATGATTGGAGCCGCAAAGGAA
1 AATCTTATACCCTAAAGATGTAGAGGGGCA-GATTGAAGCCGCAAAGGCA
* * * * ** * * *
67334 AATGTTAGAGCCTAGAGATGT-GAAGGGAAACATTGAAGCCGAAAAGACA
1 AATCTTATACCCTAAAGATGTAG-AGGGGCAGATTGAAGCCGCAAAGGCA
* ** *
67383 AATCTTATACCCTAGAGATGT-GAAGGGAAAGATTGAAGCCGC-AAGAGCG
1 AATCTTATACCCTAAAGATGTAG-AGGGGCAGATTGAAGCCGCAAAG-GCA
* * ** * **
67432 AATCTTATA-CCTAGAGATGTGGAGGGAAAGACTGAAGCCGCAAAGGTG
1 AATCTTATACCCTAAAGATGTAGAGGGGCAGATTGAAGCCGCAAAGGCA
* ** *
67480 AATCTTATACCCTAGAGATGTAGAGGGAAAGATTGAGGCCGCAAAGGCA
1 AATCTTATACCCTAAAGATGTAGAGGGGCAGATTGAAGCCGCAAAGGCA
* * * ** * * *
67529 AATCTTATACCTTAGAGATGTGGAGGGAAAGATT-AAGGTCACAAAGGCT
1 AATCTTATACCCTAAAGATGTAGAGGGGCAGATTGAA-GCCGCAAAGGCA
* * ** * * *
67578 AATCTTATACCCTAGAGATGTGGAGGGAAAGAAT-AAGGCCACAAAGGCG
1 AATCTTATACCCTAAAGATGTAGAGGGGCAGATTGAA-GCCGCAAAGGCA
* * * *
67627 AATCTTATATCCTAAAGATGTAGAGAGGCAGTTTGAAGTCGCAAAGGCA
1 AATCTTATACCCTAAAGATGTAGAGGGGCAGATTGAAGCCGCAAAGGCA
* * * ** *
67676 AATCTTATACTCTAAAGATGAAGAGGGGCAGACTGAAATCGTAAAGGCA
1 AATCTTATACCCTAAAGATGTAGAGGGGCAGATTGAAGCCGCAAAGGCA
* * * * * *
67725 AAT-TTAATATCCTAAAGATGAAGAAGGGCATATTGAAGCCGCAAAGCCG
1 AATCTT-ATACCCTAAAGATGTAGAGGGGCAGATTGAAGCCGCAAAGGCA
*
67774 AATCTTATACCCTAAAGATGGAGAGGGGCAGATTGAAG
1 AATCTTATACCCTAAAGATGTAGAGGGGCAGATTGAAG
67812 TTGTAAAAAG
Statistics
Matches: 848, Mismatches: 131, Indels: 66
0.81 0.13 0.06
Matches are distributed among these distances:
44 2 0.00
45 31 0.04
46 1 0.00
47 3 0.00
48 99 0.12
49 691 0.81
50 18 0.02
51 3 0.00
ACGTcount: A:0.37, C:0.15, G:0.27, T:0.21
Consensus pattern (49 bp):
AATCTTATACCCTAAAGATGTAGAGGGGCAGATTGAAGCCGCAAAGGCA
Found at i:72611 original size:10 final size:12
Alignment explanation
Indices: 72580--72613 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
72570 CCTTCTTCCA
72580 TTCTTCCATTTT
1 TTCTTCCATTTT
72592 TTCTTCCATTTT
1 TTCTTCCATTTT
72604 TT-TT-CATTTT
1 TTCTTCCATTTT
72614 CTTCAAAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 6 0.27
11 2 0.09
12 14 0.64
ACGTcount: A:0.09, C:0.21, G:0.00, T:0.71
Consensus pattern (12 bp):
TTCTTCCATTTT
Found at i:75240 original size:18 final size:18
Alignment explanation
Indices: 75217--75266 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
75207 AAAATACAGG
75217 AAATGATGTTAACACTTC
1 AAATGATGTTAACACTTC
*
75235 AAATGATGTTCAA-ATTTC
1 AAATGATGTT-AACACTTC
75253 AAATGATGTTAACA
1 AAATGATGTTAACA
75267 TTGATGGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 2 0.07
18 25 0.86
19 2 0.07
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.34
Consensus pattern (18 bp):
AAATGATGTTAACACTTC
Found at i:75785 original size:72 final size:72
Alignment explanation
Indices: 75693--75870 Score: 311
Period size: 72 Copynumber: 2.5 Consensus size: 72
75683 CAATGCTAGA
* *
75693 CTAGTTTTATCAATAGTTGTTTATCTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATATTTGGTTTTTGGATATTGAATTTATGTTATACTTATTTAT
75758 GTGTAAT
66 GTGTAAT
*
75765 CTAGTTTTATCAATAGTTGTTTATATTTGGCTTTTGGATATTGAATTTATGTTATACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATATTTGGTTTTTGGATATTGAATTTATGTTATACTTATTTAT
75830 GTGTAAT
66 GTGTAAT
* *
75837 TTAGTTTTATCAATAGTTGTTTATATTTGATTTT
1 CTAGTTTTATCAATAGTTGTTTATATTTGGTTTT
75871 GAATATAAAA
Statistics
Matches: 100, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 100 1.00
ACGTcount: A:0.24, C:0.06, G:0.15, T:0.56
Consensus pattern (72 bp):
CTAGTTTTATCAATAGTTGTTTATATTTGGTTTTTGGATATTGAATTTATGTTATACTTATTTAT
GTGTAAT
Found at i:76878 original size:6 final size:6
Alignment explanation
Indices: 76867--76893 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
76857 TGAAAAATGT
76867 GGAAAG GGAAAG GGAAAG GGAAAG GGA
1 GGAAAG GGAAAG GGAAAG GGAAAG GGA
76894 CTTGAAGAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (6 bp):
GGAAAG
Done.