Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01012862.1 Kokia drynarioides strain JFW-HI SEQ_127876, 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: 5423
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Warning! 50 characters in sequence are not A, C, G, or T
Found at i:2017 original size:28 final size:31
Alignment explanation
Indices: 1948--2262 Score: 127
Period size: 30 Copynumber: 10.6 Consensus size: 31
1938 ATCCAGGGGC
* *
1948 AAAATGGTAATTTTGGGAAATTTCAAGGTTA
1 AAAATGGTAATTTTAGGAAATTTCAAGGGTA
* *
1979 AAAATAG-AATTTTAGG-CA-TTCAAGGGT-
1 AAAATGGTAATTTTAGGAAATTTCAAGGGTA
* * * *
2006 AAAATGGTAATTTTTGGAAGA-ATCGAGGTTA
1 AAAATGGTAATTTTAGGAA-ATTTCAAGGGTA
* * *
2037 AAAATGG-AATTTTTGGAAGTTT-AGGGGT-
1 AAAATGGTAATTTTAGGAAATTTCAAGGGTA
* *
2065 AAAATGGTAATTTTTAGGAAGA-ATCGA-GGTCA
1 AAAATGGTAA-TTTTAGGAA-ATTTCAAGGGT-A
* *
2097 AAAATGG-AA-TTTATGG-AAGTTCGAGGGT-
1 AAAATGGTAATTTTA-GGAAATTTCAAGGGTA
* ** * *
2125 AAAATGGTAATTTTTGGAAAAATCAAGGTTT
1 AAAATGGTAATTTTAGGAAATTTCAAGGGTA
* *
2156 AAAATGG-AATTTT-TGAAAGTTT-GAGGGT-
1 AAAATGGTAATTTTAGGAAA-TTTCAAGGGTA
* * *
2184 AAAATGGTAATTTTTGGAAAAATT-GA-GGTCA
1 AAAATGGTAATTTTAGG-AAATTTCAAGGGT-A
* * *
2215 AAAATGG-AATTTTTGGAAGTTT-GAGGGT-
1 AAAATGGTAATTTTAGGAAATTTCAAGGGTA
* *
2243 AAAATGGTATTTTTTGGAAA
1 AAAATGGTAATTTTAGGAAA
2263 AATTGAGGTT
Statistics
Matches: 221, Mismatches: 37, Indels: 54
0.71 0.12 0.17
Matches are distributed among these distances:
27 6 0.03
28 45 0.20
29 52 0.24
30 79 0.36
31 32 0.14
32 7 0.03
ACGTcount: A:0.38, C:0.03, G:0.26, T:0.33
Consensus pattern (31 bp):
AAAATGGTAATTTTAGGAAATTTCAAGGGTA
Found at i:2021 original size:59 final size:60
Alignment explanation
Indices: 1948--2315 Score: 430
Period size: 59 Copynumber: 6.2 Consensus size: 60
1938 ATCCAGGGGC
** * * * * **
1948 AAAATGGTAA-TTTTGGGAAATTTCAAGGTTAAAAATAGAATTTTAGGCA-TTCAAGGGT
1 AAAATGGTAATTTTTGGGAAAAATCGAGGTTAAAAATGGAATTTTTGGAAGTTTGAGGGT
*
2006 AAAATGGTAATTTTT-GGAAGAATCGAGGTTAAAAATGGAATTTTTGGAAGTTT-AGGGGT
1 AAAATGGTAATTTTTGGGAAAAATCGAGGTTAAAAATGGAATTTTTGGAAGTTTGA-GGGT
* * * * *
2065 AAAATGGTAATTTTTAGGAAGAATCGAGGTCAAAAATGGAATTTATGGAAGTTCGAGGGT
1 AAAATGGTAATTTTTGGGAAAAATCGAGGTTAAAAATGGAATTTTTGGAAGTTTGAGGGT
* * *
2125 AAAATGGTAATTTTT-GGAAAAATCAAGGTTTAAAATGGAATTTTTGAAAGTTTGAGGGT
1 AAAATGGTAATTTTTGGGAAAAATCGAGGTTAAAAATGGAATTTTTGGAAGTTTGAGGGT
* *
2184 AAAATGGTAATTTTT-GGAAAAATTGAGGTCAAAAATGGAATTTTTGGAAGTTTGAGGGT
1 AAAATGGTAATTTTTGGGAAAAATCGAGGTTAAAAATGGAATTTTTGGAAGTTTGAGGGT
* * * * *
2243 AAAATGGT-ATTTTTTGGAAAAATTGAGGTTAAAAAAGGAA-TTTGGGAAAGTTTGGGGGT
1 AAAATGGTAATTTTTGGGAAAAATCGAGGTTAAAAATGGAATTTTTGG-AAGTTTGAGGGT
2302 AAAAAT-GTAATTTT
1 -AAAATGGTAATTTT
2316 GGAAAGTTCG
Statistics
Matches: 274, Mismatches: 27, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
58 49 0.18
59 160 0.58
60 64 0.23
61 1 0.00
ACGTcount: A:0.38, C:0.02, G:0.26, T:0.33
Consensus pattern (60 bp):
AAAATGGTAATTTTTGGGAAAAATCGAGGTTAAAAATGGAATTTTTGGAAGTTTGAGGGT
Found at i:2048 original size:30 final size:30
Alignment explanation
Indices: 2005--2276 Score: 236
Period size: 30 Copynumber: 9.2 Consensus size: 30
1995 CATTCAAGGG
2005 TAAAATGGTAATTTTTGGAAGAATCGAGGT
1 TAAAATGGTAATTTTTGGAAGAATCGAGGT
** * *
2035 TAAAAATGG-AATTTTTGGAAGTTTAG-GGG
1 T-AAAATGGTAATTTTTGGAAGAATCGAGGT
2064 TAAAATGGTAATTTTTAGGAAGAATCGAGGT
1 TAAAATGGTAATTTTT-GGAAGAATCGAGGT
* * * *
2095 CAAAAATGG-AATTTATGGAAG-TTCGAGGG
1 -TAAAATGGTAATTTTTGGAAGAATCGAGGT
* *
2124 TAAAATGGTAATTTTTGGAAAAATCAAGGTT
1 TAAAATGGTAATTTTTGGAAGAATCGAGG-T
* * * *
2155 TAAAATGG-AATTTTTGAAAG-TTTGAGGG
1 TAAAATGGTAATTTTTGGAAGAATCGAGGT
* *
2183 TAAAATGGTAATTTTTGGAAAAATTGAGGT
1 TAAAATGGTAATTTTTGGAAGAATCGAGGT
* * * *
2213 CAAAAATGG-AATTTTTGGAAG-TTTGAGGG
1 -TAAAATGGTAATTTTTGGAAGAATCGAGGT
* * *
2242 TAAAATGGTATTTTTTGGAAAAATTGAGGT
1 TAAAATGGTAATTTTTGGAAGAATCGAGGT
2272 TAAAA
1 TAAAA
2277 AAGGAATTTG
Statistics
Matches: 192, Mismatches: 37, Indels: 26
0.75 0.15 0.10
Matches are distributed among these distances:
28 29 0.15
29 56 0.29
30 70 0.36
31 30 0.16
32 7 0.04
ACGTcount: A:0.38, C:0.02, G:0.26, T:0.33
Consensus pattern (30 bp):
TAAAATGGTAATTTTTGGAAGAATCGAGGT
Found at i:2262 original size:118 final size:118
Alignment explanation
Indices: 1948--2334 Score: 489
Period size: 118 Copynumber: 3.3 Consensus size: 118
1938 ATCCAGGGGC
* * * * * * * *
1948 AAAATGGTAATTTTGGGAAATTTCAAGGTTAAAAATAGAATTTTAGGCA-TTCAAGGGTAAAATG
1 AAAATGGTAATTTTGGAAAAATTCGAGGTCAAAAATGGAATTTTTGGAAGTTCGAGGGTAAAATG
* *
2012 GTAATTTTTGGAAGAATCGAGGTTAAAAATGGAATTTTTGGAAGTTT-AGGGGT
66 GTAATTTTTGGAAAAATCGAGGTTAAAAATGGAATTTTTGAAAGTTTGA-GGGT
* *
2065 AAAATGGTAATTTTTAGGAAGAA-TCGAGGTCAAAAATGGAATTTATGGAAGTTCGAGGGTAAAA
1 AAAATGGTAA-TTTT-GGAAAAATTCGAGGTCAAAAATGGAATTTTTGGAAGTTCGAGGGTAAAA
* *
2129 TGGTAATTTTTGGAAAAATCAAGGTTTAAAATGGAATTTTTGAAAGTTTGAGGGT
64 TGGTAATTTTTGGAAAAATCGAGGTTAAAAATGGAATTTTTGAAAGTTTGAGGGT
*
2184 AAAATGGTAATTTTTGGAAAAATT-GAGGTCAAAAATGGAATTTTTGGAAGTTTGAGGGTAAAAT
1 AAAATGGTAA-TTTTGGAAAAATTCGAGGTCAAAAATGGAATTTTTGGAAGTTCGAGGGTAAAAT
* * * ** *
2248 GGTATTTTTTGGAAAAATTGAGGTTAAAAAAGGAATTTGGGAAAGTTTGGGGGT
65 GGTAATTTTTGGAAAAATCGAGGTTAAAAATGGAATTTTTGAAAGTTTGAGGGT
*
2302 AAAAAT-GTAATTTTGG-AAAGTTCGAGGTCAAAA
1 -AAAATGGTAATTTTGGAAAAATTCGAGGTCAAAA
2335 TATAATTTTG
Statistics
Matches: 237, Mismatches: 26, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
116 5 0.02
117 26 0.11
118 119 0.50
119 86 0.36
120 1 0.00
ACGTcount: A:0.39, C:0.03, G:0.26, T:0.32
Consensus pattern (118 bp):
AAAATGGTAATTTTGGAAAAATTCGAGGTCAAAAATGGAATTTTTGGAAGTTCGAGGGTAAAATG
GTAATTTTTGGAAAAATCGAGGTTAAAAATGGAATTTTTGAAAGTTTGAGGGT
Found at i:2343 original size:28 final size:30
Alignment explanation
Indices: 2281--2373 Score: 102
Period size: 28 Copynumber: 3.2 Consensus size: 30
2271 TTAAAAAAGG
* * * * *
2281 AATTTGGGA-AAGTTTGGGGGTAAAAATGT
1 AATTTTGGAGAAGTTTAGAGGTCAAAATAT
*
2310 AATTTTGGA-AAG-TTCGAGGTCAAAATAT
1 AATTTTGGAGAAGTTTAGAGGTCAAAATAT
*
2338 AATTTTGGAGAAGTTTAGGGGTCAAAATAT
1 AATTTTGGAGAAGTTTAGAGGTCAAAATAT
2368 AATTTT
1 AATTTT
2374 TGGACAATTT
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
28 21 0.38
29 14 0.25
30 20 0.36
ACGTcount: A:0.37, C:0.03, G:0.26, T:0.34
Consensus pattern (30 bp):
AATTTTGGAGAAGTTTAGAGGTCAAAATAT
Found at i:2363 original size:30 final size:29
Alignment explanation
Indices: 2281--2387 Score: 119
Period size: 30 Copynumber: 3.7 Consensus size: 29
2271 TTAAAAAAGG
* * * *
2281 AATTTGGGAAAGTTTGGGGGTAAAAATGT
1 AATTTTGGAAAGTTTAGGGGTCAAAATAT
* *
2310 AATTTTGGAAAG-TTCGAGGTCAAAATAT
1 AATTTTGGAAAGTTTAGGGGTCAAAATAT
2338 AATTTTGGAGAAGTTTAGGGGTCAAAATAT
1 AATTTTGGA-AAGTTTAGGGGTCAAAATAT
2368 AATTTTTGGACAA-TTTAGGG
1 AA-TTTTGGA-AAGTTTAGGG
2388 ACCTTCGGGG
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
28 21 0.31
29 14 0.21
30 23 0.34
31 9 0.13
ACGTcount: A:0.36, C:0.04, G:0.27, T:0.34
Consensus pattern (29 bp):
AATTTTGGAAAGTTTAGGGGTCAAAATAT
Found at i:2365 original size:118 final size:116
Alignment explanation
Indices: 1943--2377 Score: 465
Period size: 118 Copynumber: 3.7 Consensus size: 116
1933 TGGGTATCCA
* * * * * * **
1943 GGGGCAAAATGGTAATTTTGGGAAATTTCAAGGTTAAAAATAGAATTTTAGGCA-TTCAAGGGTA
1 GGGGTAAAATGGTAATTTTTGGAAAGTTCGAGGTCAAAAAT-GAATTTT-GGAAGTTTGAGGGTA
* *
2007 AAATGGTAATTTTTGGAAGAATCGAGGTTAAAAATGGAATTTTTGG-AAGTTTA
64 AAATGGTAATTTTTGGAAAAATCGAGGTTAAAAATGGAA-TTTTGGAAAGTTTG
* *
2060 GGGGTAAAATGGTAATTTTTAGG-AAGAATCGAGGTCAAAAATGGAATTTATGGAAGTTCGAGGG
1 GGGGTAAAATGGTAATTTTT-GGAAAG-TTCGAGGTCAAAAAT-GAATTT-TGGAAGTTTGAGGG
* * *
2124 TAAAATGGTAATTTTTGGAAAAATCAAGGTTTAAAATGGAATTTTTGAAAGTTTG
62 TAAAATGGTAATTTTTGGAAAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTG
* *
2179 AGGGTAAAATGGTAATTTTTGGAAAAATT-GAGGTCAAAAATGGAATTTTTGGAAGTTTGAGGGT
1 GGGGTAAAATGGTAATTTTTGG-AAAGTTCGAGGTCAAAAAT-GAA-TTTTGGAAGTTTGAGGGT
* * * *
2243 AAAATGGTATTTTTTGGAAAAATTGAGGTTAAAAAAGGAATTTGGGAAAGTTTG
63 AAAATGGTAATTTTTGGAAAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTG
2297 GGGGTAAAAAT-GTAA-TTTTGGAAAGTTCGAGGTCAAAATAT-AATTTTGGAGAAGTTT-AGGG
1 GGGGT-AAAATGGTAATTTTTGGAAAGTTCGAGGTCAAAA-ATGAATTTT-G-GAAGTTTGA-GG
*
2358 GTCAAAAT-ATAATTTTTGGA
61 GT-AAAATGGTAATTTTTGGA
2378 CAATTTAGGG
Statistics
Matches: 274, Mismatches: 29, Indels: 30
0.82 0.09 0.09
Matches are distributed among these distances:
115 4 0.01
116 9 0.03
117 57 0.21
118 122 0.45
119 80 0.29
120 2 0.01
ACGTcount: A:0.38, C:0.03, G:0.27, T:0.33
Consensus pattern (116 bp):
GGGGTAAAATGGTAATTTTTGGAAAGTTCGAGGTCAAAAATGAATTTTGGAAGTTTGAGGGTAAA
ATGGTAATTTTTGGAAAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTG
Found at i:3203 original size:17 final size:16
Alignment explanation
Indices: 3181--3249 Score: 66
Period size: 17 Copynumber: 4.1 Consensus size: 16
3171 TTAATTTAAT
3181 TTAAATTTAAAATAAA
1 TTAAATTTAAAATAAA
*
3197 CTTAAATTTAAAGTAAA
1 -TTAAATTTAAAATAAA
* * *
3214 TTCAAACTCAAAATGAAT
1 TT-AAATTTAAAAT-AAA
*
3232 TTGAATTTAAAATAAA
1 TTAAATTTAAAATAAA
3248 TT
1 TT
3250 CAAACTTATT
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
16 6 0.15
17 31 0.76
18 4 0.10
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.36
Consensus pattern (16 bp):
TTAAATTTAAAATAAA
Found at i:3227 original size:34 final size:34
Alignment explanation
Indices: 3189--3255 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
3179 ATTTAAATTT
*
3189 AAAATAAACTTAAATTTAAAGTAAATTCAAACTC
1 AAAATAAACTTAAATTTAAAATAAATTCAAACTC
* * *
3223 AAAATGAATTTGAATTTAAAATAAATTCAAACT
1 AAAATAAACTTAAATTTAAAATAAATTCAAACT
3256 TATTTAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.55, C:0.09, G:0.04, T:0.31
Consensus pattern (34 bp):
AAAATAAACTTAAATTTAAAATAAATTCAAACTC
Found at i:3765 original size:39 final size:37
Alignment explanation
Indices: 3722--3937 Score: 138
Period size: 39 Copynumber: 5.6 Consensus size: 37
3712 GATGGTGATT
*
3722 TGCCCCAAGCTCGAGGTAAAAAGTCAGATGGTTGCAATC
1 TGCCCCAAGCTCGGGGT-AAAAG-CAGATGGTTGCAATC
*
3761 TGCCCCAGGCTCGGGGT--AAG-AGATTGGTTGACGATGATC
1 TGCCCCAAGCTCGGGGTAAAAGCAGA-TGGTTG-C-A--ATC
* * * *
3800 TACCCCAAGCTCGGGGTGAAAGAACAAATGGCTGCAATC
1 TGCCCCAAGCTCGGGGT-AAA-AGCAGATGGTTGCAATC
* * *
3839 TGCCCCAGGTTCGGGGT--AAG-AGATTGGTTGACGATGATT
1 TGCCCCAAGCTCGGGGTAAAAGCAGA-TGGTTG-C-A--ATC
* * *
3878 TGCCCCAAGCTCGTGGTAAAAGATCAAATGGTTGCAATT
1 TGCCCCAAGCTCGGGGTAAAAG--CAGATGGTTGCAATC
3917 TGCCCCAAGCTCGGGGTAAAA
1 TGCCCCAAGCTCGGGGTAAAA
3938 AATTGGTTGA
Statistics
Matches: 138, Mismatches: 19, Indels: 40
0.70 0.10 0.20
Matches are distributed among these distances:
34 5 0.04
35 12 0.09
36 6 0.04
37 2 0.01
39 89 0.64
41 5 0.04
42 3 0.02
43 12 0.09
44 4 0.03
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (37 bp):
TGCCCCAAGCTCGGGGTAAAAGCAGATGGTTGCAATC
Found at i:3807 original size:78 final size:78
Alignment explanation
Indices: 3678--3952 Score: 358
Period size: 78 Copynumber: 3.5 Consensus size: 78
3668 TGGATAACTA
* * * *
3678 CAATCTGCCCCAAGCTCGGGGTAGGAGATTGGCTGATGGTGATTTGCCCCAAGCTCGAGGTAAAA
1 CAATCTGCCCCAAGCTCGGGGTAAGAGATTGGTTGACGATGATTTGCCCCAAGCTCGAGGTAAAA
*
3743 AGTCAGATGGTTG
66 AGTCAAATGGTTG
* * * *
3756 CAATCTGCCCCAGGCTCGGGGTAAGAGATTGGTTGACGATGATCTACCCCAAGCTCGGGGTGAAA
1 CAATCTGCCCCAAGCTCGGGGTAAGAGATTGGTTGACGATGATTTGCCCCAAGCTCGAGGT-AAA
*
3821 GAA--CAAATGGCTG
65 -AAGTCAAATGGTTG
* * *
3834 CAATCTGCCCCAGGTTCGGGGTAAGAGATTGGTTGACGATGATTTGCCCCAAGCTCGTGGT-AAA
1 CAATCTGCCCCAAGCTCGGGGTAAGAGATTGGTTGACGATGATTTGCCCCAAGCTCGAGGTAAAA
3898 AGATCAAATGGTTG
66 AG-TCAAATGGTTG
* * *
3912 CAATTTGCCCCAAGCTCGGGGTAAAAAATTGGTTGACGATG
1 CAATCTGCCCCAAGCTCGGGGTAAGAGATTGGTTGACGATG
3953 TAACTCCATT
Statistics
Matches: 172, Mismatches: 20, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
75 2 0.01
76 2 0.01
78 163 0.95
79 3 0.02
80 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (78 bp):
CAATCTGCCCCAAGCTCGGGGTAAGAGATTGGTTGACGATGATTTGCCCCAAGCTCGAGGTAAAA
AGTCAAATGGTTG
Found at i:4490 original size:49 final size:49
Alignment explanation
Indices: 4241--4597 Score: 271
Period size: 48 Copynumber: 7.3 Consensus size: 49
4231 CGACTTAAAC
** * * * *
4241 CTTTCCCTTTGTGTCTTCATGGTACCGGATCTGCCATTGCGGCTTAGAT
1 CTTTCCCTTCATGTCTTCGTGGTACTGGATCCGCCGTTGCGGCTTAGAT
* * * * * * * *
4290 CCTTCCATT-GTATCTTCGTGGTATTGGATCCACCGTAGCGGCTTAGGT
1 CTTTCCCTTCATGTCTTCGTGGTACTGGATCCGCCGTTGCGGCTTAGAT
* * * *
4338 CTTTCCC-TCGTGTCTTCATGGTATTGGATCCGCCGTTGCGGTTTAGAT
1 CTTTCCCTTCATGTCTTCGTGGTACTGGATCCGCCGTTGCGGCTTAGAT
* * * * * * *
4386 CTTTCCCTTTTATG-CTTCTGAGGTACTAGG-TTCACCATTGCGACTTA-AA
1 CTTTCCC-TTCATGTCTTC-GTGGTACT-GGATCCGCCGTTGCGGCTTAGAT
*
4435 CTTTTCCCTTCATGTCTTCGCGGTACTGGATCCGCCGTTGCGGCTTAGAT
1 C-TTTCCCTTCATGTCTTCGTGGTACTGGATCCGCCGTTGCGGCTTAGAT
* * * * * *
4485 CTTTCCCTTCATGTC-TCTGAGGTACTAGG-TTCGCCATTGCGACTTAAAC
1 CTTTCCCTTCATGTCTTC-GTGGTACT-GGATCCGCCGTTGCGGCTTAGAT
* * * * *
4534 CTTTCCCTT-ATGTCTTCGCGGTATTAGATCCGCCGTTCCGACTTAGAT
1 CTTTCCCTTCATGTCTTCGTGGTACTGGATCCGCCGTTGCGGCTTAGAT
4582 CTTTCCCTTCATGTCT
1 CTTTCCCTTCATGTCT
4598 CTAAGGTACT
Statistics
Matches: 243, Mismatches: 51, Indels: 28
0.75 0.16 0.09
Matches are distributed among these distances:
47 2 0.01
48 114 0.47
49 91 0.37
50 34 0.14
51 2 0.01
ACGTcount: A:0.14, C:0.27, G:0.21, T:0.38
Consensus pattern (49 bp):
CTTTCCCTTCATGTCTTCGTGGTACTGGATCCGCCGTTGCGGCTTAGAT
Found at i:4590 original size:97 final size:97
Alignment explanation
Indices: 4194--4639 Score: 463
Period size: 97 Copynumber: 4.6 Consensus size: 97
4184 CGACTTAAAC
* * * *
4194 CTTTCCCTTCATATCTCTGAAGTACTAGGTTCGTC--TGCGACTTAAACCTTTCCCTTTGTGTCT
1 CTTTCCCTTCATGTCTCTGAGGTACTAGGTTCGCCATTGCGACTTAAACCTTTCCC-TTATGTCT
** ** * *
4257 TCATGGTACCGGATCTGCCATTGCGGCTTAGAT
65 TCGCGGTATTGGATCCGCCGTTGCGGCTTAGAT
* * * * * * * * * * * *** **
4290 CCTTCCATT-GTATCT-TCGTGGTA-TTGGATCCACCGTAGCGGCTTAGGTCTTTCCCTCGTGTC
1 CTTTCCCTTCATGTCTCT-GAGGTACTAGG-TTCGCCATTGCGACTTAAACCTTTCCCTTATGTC
** *
4352 TTCATGGTATTGGATCCGCCGTTGCGGTTTAGAT
64 TTCGCGGTATTGGATCCGCCGTTGCGGCTTAGAT
* * *
4386 CTTTCCCTTTTATG-CTTCTGAGGTACTAGGTTCACCATTGCGACTTAAACTTTTCCCTTCATGT
1 CTTTCCC-TTCATGTC-TCTGAGGTACTAGGTTCGCCATTGCGACTTAAACCTTTCCCTT-ATGT
*
4450 CTTCGCGGTACTGGATCCGCCGTTGCGGCTTAGAT
63 CTTCGCGGTATTGGATCCGCCGTTGCGGCTTAGAT
4485 CTTTCCCTTCATGTCTCTGAGGTACTAGGTTCGCCATTGCGACTTAAACCTTTCCCTTATGTCTT
1 CTTTCCCTTCATGTCTCTGAGGTACTAGGTTCGCCATTGCGACTTAAACCTTTCCCTTATGTCTT
* * *
4550 CGCGGTATTAGATCCGCCGTTCCGACTTAGAT
66 CGCGGTATTGGATCCGCCGTTGCGGCTTAGAT
*
4582 CTTTCCCTTCATGTCTCTAAGGTACTAGGTTCGCCATTGCGACTTAAACCTTTCCCTT
1 CTTTCCCTTCATGTCTCTGAGGTACTAGGTTCGCCATTGCGACTTAAACCTTTCCCTT
4640 CAAATCTTCA
Statistics
Matches: 291, Mismatches: 48, Indels: 21
0.81 0.13 0.06
Matches are distributed among these distances:
94 4 0.01
95 12 0.04
96 47 0.16
97 109 0.37
98 73 0.25
99 46 0.16
ACGTcount: A:0.15, C:0.28, G:0.20, T:0.37
Consensus pattern (97 bp):
CTTTCCCTTCATGTCTCTGAGGTACTAGGTTCGCCATTGCGACTTAAACCTTTCCCTTATGTCTT
CGCGGTATTGGATCCGCCGTTGCGGCTTAGAT
Found at i:4635 original size:49 final size:49
Alignment explanation
Indices: 4172--4641 Score: 279
Period size: 49 Copynumber: 9.7 Consensus size: 49
4162 TAAGGTACCG
* * *
4172 GGTTTGCCATTGCGACTTAAACCTTTCCCTTCATATC-TCTGAAGTACTA
1 GGTTCGCCATTGCGACTTAAACCTTTCCCTTCATGTCTTC-GAGGTACTA
* ** *
4221 GGTTCGTC--TGCGACTTAAACCTTTCCCTTTGTGTCTTC-ATGGTAC-C
1 GGTTCGCCATTGCGACTTAAACCTTTCCCTTCATGTCTTCGA-GGTACTA
* * * * * * * *
4267 GGATCTGCCATTGCGGCTTAGATCC-TTCCATT-GTATCTTCGTGGTA-TT
1 GGTTC-GCCATTGCGACTTA-AACCTTTCCCTTCATGTCTTCGAGGTACTA
* * * * * *** * *
4315 GGATCCACCGTAGCGGCTTAGGTCTTTCCC-TCGTGTCTTC-ATGGTA-TT
1 GG-TTCGCCATTGCGACTTAAACCTTTCCCTTCATGTCTTCGA-GGTACTA
* * ** * * *
4363 GGATCCGCCGTTGCGGTTTAGATCTTTCCCTTTTATG-CTTCTGAGGTACTA
1 GG-TTCGCCATTGCGACTTAAACCTTTCCC-TTCATGTCTTC-GAGGTACTA
* * *
4414 GGTTCACCATTGCGACTTAAACTTTTCCCTTCATGTCTTCGCGGTACT-
1 GGTTCGCCATTGCGACTTAAACCTTTCCCTTCATGTCTTCGAGGTACTA
* * * * *
4462 GGATCCGCCGTTGCGGCTTAGATCTTTCCCTTCATGTC-TCTGAGGTACTA
1 GG-TTCGCCATTGCGACTTAAACCTTTCCCTTCATGTCTTC-GAGGTACTA
* *
4512 GGTTCGCCATTGCGACTTAAACCTTTCCCTT-ATGTCTTCGCGGTATTA
1 GGTTCGCCATTGCGACTTAAACCTTTCCCTTCATGTCTTCGAGGTACTA
* * * * * * *
4560 GATCCGCCGTTCCGACTTAGATCTTTCCCTTCATGTC-TCTAAGGTACTA
1 GGTTCGCCATTGCGACTTAAACCTTTCCCTTCATGTCTTC-GAGGTACTA
4609 GGTTCGCCATTGCGACTTAAACCTTTCCCTTCA
1 GGTTCGCCATTGCGACTTAAACCTTTCCCTTCA
4642 AATCTTCATG
Statistics
Matches: 324, Mismatches: 73, Indels: 48
0.73 0.16 0.11
Matches are distributed among these distances:
46 5 0.02
47 32 0.10
48 112 0.35
49 136 0.42
50 35 0.11
51 4 0.01
ACGTcount: A:0.16, C:0.27, G:0.20, T:0.37
Consensus pattern (49 bp):
GGTTCGCCATTGCGACTTAAACCTTTCCCTTCATGTCTTCGAGGTACTA
Done.