Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01012199.1 Kokia drynarioides strain JFW-HI SEQ_127200, 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: 199976
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 82 characters in sequence are not A, C, G, or T
Found at i:2257 original size:21 final size:21
Alignment explanation
Indices: 2214--2257 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
2204 GAAGTATGGG
* *
2214 TTGTATCGGTAGTACTTATAC
1 TTGTATCGGTAGAACTTACAC
* *
2235 TTGTATTGGTAGAACTTCCAC
1 TTGTATCGGTAGAACTTACAC
2256 TT
1 TT
2258 CTACTTGTAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.23, C:0.16, G:0.18, T:0.43
Consensus pattern (21 bp):
TTGTATCGGTAGAACTTACAC
Found at i:2982 original size:24 final size:24
Alignment explanation
Indices: 2944--3008 Score: 60
Period size: 24 Copynumber: 2.7 Consensus size: 24
2934 CGATTAGGGA
**
2944 TTAAATAATTGTATAAATAATT-T
1 TTAAATAATAATATAAATAATTAT
* *
2967 TGTAAATAATAATATAGATTATTAT
1 T-TAAATAATAATATAAATAATTAT
*
2992 TTGAAATAATAAAATAA
1 TT-AAATAATAATATAA
3009 CCTTTTTCAA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
23 1 0.03
24 18 0.55
25 14 0.42
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (24 bp):
TTAAATAATAATATAAATAATTAT
Found at i:3571 original size:19 final size:23
Alignment explanation
Indices: 3525--3572 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
3515 TTTTTTTGTT
3525 TTATTTTTATTCAAATTATTTAA
1 TTATTTTTATTCAAATTATTTAA
3548 TTATTTTTA-T-AAA-TATTT-A
1 TTATTTTTATTCAAATTATTTAA
3567 TTATTT
1 TTATTT
3573 ATTGTTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.28
20 5 0.20
21 3 0.12
22 1 0.04
23 9 0.36
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (23 bp):
TTATTTTTATTCAAATTATTTAA
Found at i:6198 original size:21 final size:21
Alignment explanation
Indices: 6155--6198 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
6145 GAAGTATGGG
* *
6155 TTGTATCGGTAGTACTTATAC
1 TTGTATCGGTAGAACTTACAC
* *
6176 TTGTATTGGTAGAACTTCCAC
1 TTGTATCGGTAGAACTTACAC
6197 TT
1 TT
6199 CTACTTGTAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.23, C:0.16, G:0.18, T:0.43
Consensus pattern (21 bp):
TTGTATCGGTAGAACTTACAC
Found at i:6923 original size:24 final size:24
Alignment explanation
Indices: 6885--6949 Score: 60
Period size: 24 Copynumber: 2.7 Consensus size: 24
6875 CGATTAGGGA
**
6885 TTAAATAATTGTATAAATAATT-T
1 TTAAATAATAATATAAATAATTAT
* *
6908 TGTAAATAATAATATAGATTATTAT
1 T-TAAATAATAATATAAATAATTAT
*
6933 TTGAAATAATAAAATAA
1 TT-AAATAATAATATAA
6950 CCTTTTTCAA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
23 1 0.03
24 18 0.55
25 14 0.42
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (24 bp):
TTAAATAATAATATAAATAATTAT
Found at i:7512 original size:19 final size:23
Alignment explanation
Indices: 7466--7513 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
7456 TTTTTTTGTT
7466 TTATTTTTATTCAAATTATTTAA
1 TTATTTTTATTCAAATTATTTAA
7489 TTATTTTTA-T-AAA-TATTT-A
1 TTATTTTTATTCAAATTATTTAA
7508 TTATTT
1 TTATTT
7514 ATTGTTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.28
20 5 0.20
21 3 0.12
22 1 0.04
23 9 0.36
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (23 bp):
TTATTTTTATTCAAATTATTTAA
Found at i:7535 original size:122 final size:128
Alignment explanation
Indices: 7407--7708 Score: 411
Period size: 138 Copynumber: 2.3 Consensus size: 128
7397 TAAATTAAGG
*
7407 TTTTAGTATTTATTTTATATATTTTAGGTAAAAAACTCAT-A-T-ATT-TTTATTTTT-TTGTTT
1 TTTTAGTATTTATTTTATATATTTTAGGTAAAAAACCCATAATTAATTATTT-TTTTTATTGTTT
7467 -TA-TTTTTATTCAAATTATTTAATTATTTTTATAAATATTTATTATTTATTGTTAAATTGCAA
65 CTATTTTTTATTCAAATTATTTAATTATTTTTATAAATATTTATTATTTATTGTTAAATTGCAA
7529 TTTTAGTATTTATTTTATATATTTTAGGTAAAAAACCCATAAAAAATTGAAAGAATTAATTTTTT
1 TTTTAGTATTTATTTTATATATTTTAGGTAAAAAACCCAT----AATT-----AATT-ATTTTTT
*
7594 TTATTTTTTCTATTTTTTATTCAAATTATTTAATTATTTTTATAAATATTTATTATTTATTGTTA
56 TTATTGTTTCTATTTTTTATTCAAATTATTTAATTATTTTTATAAATATTTATTATTTATTGTTA
7659 AATTGCAA
121 AATTGCAA
* * *
7667 TTTTAATATTTCTTTTATATATTTTAGGTAAAAAATCCATAA
1 TTTTAGTATTTATTTTATATATTTTAGGTAAAAAACCCATAA
7709 GAAATTGAAA
Statistics
Matches: 158, Mismatches: 5, Indels: 22
0.85 0.03 0.12
Matches are distributed among these distances:
122 39 0.25
127 1 0.01
128 1 0.01
134 5 0.03
135 5 0.03
136 8 0.05
137 2 0.01
138 97 0.61
ACGTcount: A:0.35, C:0.04, G:0.05, T:0.56
Consensus pattern (128 bp):
TTTTAGTATTTATTTTATATATTTTAGGTAAAAAACCCATAATTAATTATTTTTTTTATTGTTTC
TATTTTTTATTCAAATTATTTAATTATTTTTATAAATATTTATTATTTATTGTTAAATTGCAA
Found at i:7618 original size:138 final size:133
Alignment explanation
Indices: 7455--7771 Score: 519
Period size: 138 Copynumber: 2.4 Consensus size: 133
7445 ATATATTTTT
7455 ATTTTTTTGTTTTATTTTTATTCAAATTATTTAATTATTTTTATAAATATTTATTATTTATTGTT
1 ATTTTTTTGTTTTATTTTTATTCAAATTATTTAATTATTTTTATAAATATTTATTATTTATTGTT
*
7520 AAATTGCAATTTTAGTATTTATTTTATATATTTTAGGTAAAAAACCCATAAAAAATTGAAAGAAT
66 AAATTGCAATTTTAATATTTATTTTATATATTTTAGGTAAAAAACCCATAAAAAATTGAAAGAAT
7585 TAA
131 TAA
* *
7588 TTTTTTTTATTTTTTCTATTTTTTATTCAAATTATTTAATTATTTTTATAAATATTTATTATTTA
1 --ATTTTT-TTGTTT-TA-TTTTTATTCAAATTATTTAATTATTTTTATAAATATTTATTATTTA
* * *
7653 TTGTTAAATTGCAATTTTAATATTTCTTTTATATATTTTAGGTAAAAAATCCATAAGAAATTGAA
61 TTGTTAAATTGCAATTTTAATATTTATTTTATATATTTTAGGTAAAAAACCCATAAAAAATTGAA
7718 AGAATTAA
126 AGAATTAA
*
7726 ATTTTTTTGTTTTA-TTTTATTAAAATTATTTAATTATTTTTATAAA
1 ATTTTTTTGTTTTATTTTTATTCAAATTATTTAATTATTTTTATAAA
7772 ATTGAAAGAA
Statistics
Matches: 170, Mismatches: 9, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
132 31 0.18
134 2 0.01
135 10 0.06
136 10 0.06
137 2 0.01
138 115 0.68
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (133 bp):
ATTTTTTTGTTTTATTTTTATTCAAATTATTTAATTATTTTTATAAATATTTATTATTTATTGTT
AAATTGCAATTTTAATATTTATTTTATATATTTTAGGTAAAAAACCCATAAAAAATTGAAAGAAT
TAA
Found at i:8474 original size:18 final size:18
Alignment explanation
Indices: 8447--8486 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
8437 GGCGGTGGAA
* * *
8447 ATTGGGGTGGTGATTGGT
1 ATTGGAGTGGCGATTGAT
8465 ATTGGAGTGGCGATTGAT
1 ATTGGAGTGGCGATTGAT
8483 ATTG
1 ATTG
8487 AGTTAAGCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.03, G:0.42, T:0.38
Consensus pattern (18 bp):
ATTGGAGTGGCGATTGAT
Found at i:8660 original size:18 final size:18
Alignment explanation
Indices: 8637--8671 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
8627 AAAAAATTGA
8637 AACATATAAGGGTTAGGG
1 AACATATAAGGGTTAGGG
8655 AACATATAAGGGTTAGG
1 AACATATAAGGGTTAGG
8672 ATACAAAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.06, G:0.31, T:0.23
Consensus pattern (18 bp):
AACATATAAGGGTTAGGG
Found at i:9896 original size:22 final size:22
Alignment explanation
Indices: 9871--9914 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
9861 TCATAACCAA
9871 CTCAGTTTGATTCGACCTCCGT
1 CTCAGTTTGATTCGACCTCCGT
9893 CTCAGTTTGATTCGACCTCCGT
1 CTCAGTTTGATTCGACCTCCGT
9915 GGATAGGATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.14, C:0.32, G:0.18, T:0.36
Consensus pattern (22 bp):
CTCAGTTTGATTCGACCTCCGT
Found at i:11263 original size:52 final size:52
Alignment explanation
Indices: 11180--11427 Score: 336
Period size: 52 Copynumber: 4.8 Consensus size: 52
11170 GCCATAAATG
* *
11180 AAGAGGTCCAATGACTAAGTGTCATCGTGAGTATATGAATCCTTTAAGGATT
1 AAGAGGTCCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATT
*
11232 AAGAGGTCCGATGACTAAGTGTCATCATGAGTATATGAATCCTTTACGGATT
1 AAGAGGTCCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATT
* * *
11284 AAGAGGTTCGATGACTAAGTGTCATCATGAGTATATGAATCCTTTAGGGATT
1 AAGAGGTCCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATT
* * ** * *
11336 AAGAAGTCCGATGATTCTGTGTAATCGTGAGTATATGAATCCCTTACGGATT
1 AAGAGGTCCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATT
* * * *
11388 ATA-AGGTCTGGTGGCTATGTGTCATCGTGAGTATATGAAT
1 A-AGAGGTCCGATGACTAAGTGTCATCGTGAGTATATGAAT
11428 GAAGTGAAAT
Statistics
Matches: 174, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
52 173 0.99
53 1 0.01
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (52 bp):
AAGAGGTCCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATT
Found at i:12374 original size:14 final size:15
Alignment explanation
Indices: 12349--12377 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
12339 ATAATATAAA
12349 GATAAGATGAACAGT
1 GATAAGATGAACAGT
12364 GATAA-ATGAACAGT
1 GATAAGATGAACAGT
12378 AAAACACCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.48, C:0.07, G:0.24, T:0.21
Consensus pattern (15 bp):
GATAAGATGAACAGT
Found at i:13587 original size:52 final size:52
Alignment explanation
Indices: 13495--13692 Score: 279
Period size: 52 Copynumber: 3.8 Consensus size: 52
13485 GCCATAAACG
* *
13495 AAGAGGTCCGATGACTAAGTGTCATCATGAGTATATGAATCCTTTATGGATT
1 AAGAGGTCCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATT
* * * *
13547 AAGAGGTCCGATGATTAAGTGTTATCGTGAATATACGAATCCTTTACGGATT
1 AAGAGGTCCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATT
* * * *
13599 AAGAGGTCTGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTCCAGATT
1 AAGAGGTCCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATT
** *
13651 AAGAGGTCCGATGACTCTGTGTCATCATGAGTATATGAATCC
1 AAGAGGTCCGATGACTAAGTGTCATCGTGAGTATATGAATCC
13693 CTTGCAGATT
Statistics
Matches: 127, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
52 127 1.00
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.31
Consensus pattern (52 bp):
AAGAGGTCCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATT
Found at i:14092 original size:2 final size:2
Alignment explanation
Indices: 14085--14115 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
14075 TTTGTCATTA
14085 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14116 AAATTAAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14963 original size:51 final size:51
Alignment explanation
Indices: 14908--15235 Score: 345
Period size: 51 Copynumber: 6.4 Consensus size: 51
14898 AGGTCTAATA
* ** * *
14908 ACTAAGTGTCATCGTGAGGAAATGAATTTTTTATGGATTAAAGGTTCGATG
1 ACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCCGATG
* *
14959 ACTAAGTGTCATCATGATTAAATGAATCCTTTACGGATTAAAGGTCCGATG
1 ACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCCGATG
* * * * *
15010 ACTAAGTGTCATCTTGAGGAAATGAATCTTTTATGGATTAAAGGTCCGACG
1 ACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCCGATG
*
15061 ACTAAGTGTCATCGTGAGTAAAT-AAGTCCTGTACGGATTAAAGGTCCGATG
1 ACTAAGTGTCATCGTGAGTAAATGAA-TCCTTTACGGATTAAAGGTCCGATG
* * * * * *
15112 ACTAAGTGTCATGGTGAGTAAATGAATCCGTGATGGATTAAGGGCCCGATG
1 ACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCCGATG
** * * * * * * *
15163 ACTTTGTCTCATCATGAGTATATGAATTCCTATATGGAATAAGAGGTCTGATG
1 ACTAAGTGTCATCGTGAGTAAATGAA-TCCTTTACGGATTAA-AGGTCCGATG
*
15216 ACTATA-TGTCATCATGAGTA
1 ACTA-AGTGTCATCGTGAGTA
15236 TGAAATGAGA
Statistics
Matches: 230, Mismatches: 42, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
50 2 0.01
51 192 0.83
52 13 0.06
53 23 0.10
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.31
Consensus pattern (51 bp):
ACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCCGATG
Found at i:15018 original size:102 final size:103
Alignment explanation
Indices: 14908--15233 Score: 397
Period size: 102 Copynumber: 3.2 Consensus size: 103
14898 AGGTCTAATA
* *
14908 ACTAAGTGTCATCGTGAGGAAATGAATTTTTTATGGATTAAAGGTTCGATGACTAAGTGTCATCA
1 ACTAAGTGTCATCGTGAGGAAATGAATCTTTTATGGATTAAAGGTCCGATGACTAAGTGTCATCA
* *
14973 TGATTAAATGAA-TCCTTTACGGATTAAAGGTCCGATG
66 TGAGTAAATGAAGTCCTATACGGATTAAAGGTCCGATG
* * *
15010 ACTAAGTGTCATCTTGAGGAAATGAATCTTTTATGGATTAAAGGTCCGACGACTAAGTGTCATCG
1 ACTAAGTGTCATCGTGAGGAAATGAATCTTTTATGGATTAAAGGTCCGATGACTAAGTGTCATCA
*
15075 TGAGTAAAT-AAGTCCTGTACGGATTAAAGGTCCGATG
66 TGAGTAAATGAAGTCCTATACGGATTAAAGGTCCGATG
* * ** * * * ** *
15112 ACTAAGTGTCATGGTGAGTAAATGAATCCGTGATGGATTAAGGGCCCGATGACTTTGTCTCATCA
1 ACTAAGTGTCATCGTGAGGAAATGAATCTTTTATGGATTAAAGGTCCGATGACTAAGTGTCATCA
* * * * *
15177 TGAGTATATGAATTCCTATATGGAATAAGAGGTCTGATG
66 TGAGTAAATGAAGTCCTATACGGATTAA-AGGTCCGATG
*
15216 ACTATA-TGTCATCATGAG
1 ACTA-AGTGTCATCGTGAG
15234 TATGAAATGA
Statistics
Matches: 192, Mismatches: 28, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
101 2 0.01
102 152 0.79
103 14 0.07
104 23 0.12
105 1 0.01
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.31
Consensus pattern (103 bp):
ACTAAGTGTCATCGTGAGGAAATGAATCTTTTATGGATTAAAGGTCCGATGACTAAGTGTCATCA
TGAGTAAATGAAGTCCTATACGGATTAAAGGTCCGATG
Found at i:22238 original size:51 final size:51
Alignment explanation
Indices: 22183--22468 Score: 392
Period size: 51 Copynumber: 5.6 Consensus size: 51
22173 GAAAAGGTTT
*
22183 GATGACTAAGTGTCATCGTGAGGAAATGAATCCTTTACGGATTAAAGGTCC
1 GATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCC
* * * *
22234 GATGACTAAGTGTTATCGTGAGTAAGTGAATCCTTTATGGATTAAGGGTCC
1 GATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCC
* * *
22285 GATGACTAAGTGTCATCGTGAGGAAATGAATCCTTTACGAATTAAAGGTTC
1 GATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCC
*
22336 GATGACTAAGTGTCATCGTGAGTAAATAAATCCTTTACGGATTAAAGGTCC
1 GATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCC
* * * * *
22387 GATGACTAAGTGTCATCATGAGTAAATGAATCCATGATGGATTAAGGGTCC
1 GATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCC
* * ** * *
22438 AATGAATTTGTGTCATTGTGAGTATATGAAT
1 GATGACTAAGTGTCATCGTGAGTAAATGAAT
22469 TCCTATATGG
Statistics
Matches: 206, Mismatches: 29, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 206 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.31
Consensus pattern (51 bp):
GATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTCC
Found at i:22453 original size:153 final size:153
Alignment explanation
Indices: 22175--22468 Score: 453
Period size: 153 Copynumber: 1.9 Consensus size: 153
22165 CTATAAATGA
* *
22175 AAAGGTTTGATGACTAAGTGTCATCGTGAGGAAATGAATCCTTTACGGATTAAAGGTCCGATGAC
1 AAAGGTTCGATGACTAAGTGTCATCGTGAGGAAATAAATCCTTTACGGATTAAAGGTCCGATGAC
* * * * * * *
22240 TAAGTGTTATCGTGAGTAAGTGAATCCTTTATGGATTAAGGGTCCGATGACTAAGTGTCATCGTG
66 TAAGTGTCATCATGAGTAAATGAATCCATGATGGATTAAGGGTCCAATGAATAAGTGTCATCGTG
22305 AGGAAATGAATCCTTTACGAATT
131 AGGAAATGAATCCTTTACGAATT
*
22328 AAAGGTTCGATGACTAAGTGTCATCGTGAGTAAATAAATCCTTTACGGATTAAAGGTCCGATGAC
1 AAAGGTTCGATGACTAAGTGTCATCGTGAGGAAATAAATCCTTTACGGATTAAAGGTCCGATGAC
** *
22393 TAAGTGTCATCATGAGTAAATGAATCCATGATGGATTAAGGGTCCAATGAATTTGTGTCATTGTG
66 TAAGTGTCATCATGAGTAAATGAATCCATGATGGATTAAGGGTCCAATGAATAAGTGTCATCGTG
* *
22458 AGTATATGAAT
131 AGGAAATGAAT
22469 TCCTATATGG
Statistics
Matches: 126, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
153 126 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.31
Consensus pattern (153 bp):
AAAGGTTCGATGACTAAGTGTCATCGTGAGGAAATAAATCCTTTACGGATTAAAGGTCCGATGAC
TAAGTGTCATCATGAGTAAATGAATCCATGATGGATTAAGGGTCCAATGAATAAGTGTCATCGTG
AGGAAATGAATCCTTTACGAATT
Found at i:24533 original size:14 final size:15
Alignment explanation
Indices: 24508--24536 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
24498 ATAATATAAC
24508 GATAAGATGAACAGT
1 GATAAGATGAACAGT
24523 GATAA-ATGAACAGT
1 GATAAGATGAACAGT
24537 AAAATACCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.48, C:0.07, G:0.24, T:0.21
Consensus pattern (15 bp):
GATAAGATGAACAGT
Found at i:27129 original size:52 final size:52
Alignment explanation
Indices: 27044--27241 Score: 254
Period size: 52 Copynumber: 3.8 Consensus size: 52
27034 GCCATAAACG
*
27044 AAGAGGT-TCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATT
1 AAGAGGTCT-GATGACTAAGTGTCATCGTAAGTATATGAATCCTTTACGGATT
* * *
27096 AAGAGGTCTGATGATTAAGTGTCATCATAAGTATATGAATCCTTTATGGATT
1 AAGAGGTCTGATGACTAAGTGTCATCGTAAGTATATGAATCCTTTACGGATT
* * * *
27148 AAGAGGTCTGATGACTAAGTGTCATCGTGACTCTATGAATCCTTTACGCATT
1 AAGAGGTCTGATGACTAAGTGTCATCGTAAGTATATGAATCCTTTACGGATT
* * * ** *
27200 AATAGGGCCGATGACTCTGTATCATCGTAAGTATATGAATCC
1 AAGAGGTCTGATGACTAAGTGTCATCGTAAGTATATGAATCC
27242 CTTGCAGGTT
Statistics
Matches: 125, Mismatches: 20, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
52 124 0.99
53 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (52 bp):
AAGAGGTCTGATGACTAAGTGTCATCGTAAGTATATGAATCCTTTACGGATT
Found at i:27225 original size:104 final size:104
Alignment explanation
Indices: 27044--27279 Score: 282
Period size: 104 Copynumber: 2.3 Consensus size: 104
27034 GCCATAAACG
* * * *
27044 AAGAGGTTCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATTAAGAGGTCTGATG
1 AAGAGGTTCGATGACTAAGTGTCATCGTGACTATATGAATCCTTTACGCATTAAGAGGGCCGATG
* *
27109 ATTAAGTGTCATCATAAGTATATGAATCCTTTATGGATT
66 ACTAAGTATCATCATAAGTATATGAATCCTTTATGGATT
* *
27148 AAGAGG-TCTGATGACTAAGTGTCATCGTGACTCTATGAATCCTTTACGCATTAATAGGGCCGAT
1 AAGAGGTTC-GATGACTAAGTGTCATCGTGACTATATGAATCCTTTACGCATTAAGAGGGCCGAT
** * *
27212 GACTCTGTATCATCGTAAGTATATGAATCCCTTGCA-GG-TT
65 GACTAAGTATCATCATAAGTATATGAAT-CCTT-TATGGATT
* *
27252 ATA-AGGTTCGATGGCTATGTGTCATCGT
1 A-AGAGGTTCGATGACTAAGTGTCATCGT
27280 AAATATATTA
Statistics
Matches: 113, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
103 2 0.02
104 101 0.89
105 9 0.08
106 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.33
Consensus pattern (104 bp):
AAGAGGTTCGATGACTAAGTGTCATCGTGACTATATGAATCCTTTACGCATTAAGAGGGCCGATG
ACTAAGTATCATCATAAGTATATGAATCCTTTATGGATT
Found at i:34233 original size:18 final size:20
Alignment explanation
Indices: 34198--34234 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 20
34188 TATACAAAAT
34198 GACTATTTTGTAAATAATTA
1 GACTATTTTGTAAATAATTA
*
34218 GACT-TTTT-TAATTAATT
1 GACTATTTTGTAAATAATT
34235 TAGTTAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 8 0.50
19 4 0.25
20 4 0.25
ACGTcount: A:0.35, C:0.05, G:0.08, T:0.51
Consensus pattern (20 bp):
GACTATTTTGTAAATAATTA
Found at i:39653 original size:21 final size:22
Alignment explanation
Indices: 39629--39688 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 22
39619 ATACAAGTAT
39629 ACAAACTACCGATACTT-CTAA
1 ACAAACTACCGATACTTGCTAA
*
39650 ACAAATAACTACCGATACTTGCTAT
1 AC--A-AACTACCGATACTTGCTAA
*
39675 TC-AACTACCGATAC
1 ACAAACTACCGATAC
39689 AACCTAAGTC
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
21 14 0.42
23 1 0.03
24 14 0.42
25 4 0.12
ACGTcount: A:0.40, C:0.28, G:0.07, T:0.25
Consensus pattern (22 bp):
ACAAACTACCGATACTTGCTAA
Found at i:42011 original size:62 final size:61
Alignment explanation
Indices: 41907--42056 Score: 183
Period size: 62 Copynumber: 2.4 Consensus size: 61
41897 AATTTGGGGA
* * *
41907 TTTAGGTTTTAAAATTTTAGTGATTTTTGATATTTTTAGGGTTGTTAGGTTTGGAGAATTTGG
1 TTTAGG-TTTAAAAATTTAGGGA-TTTTGAGATTTTTAGGGTTGTTAGGTTTGGAGAATTTGG
* * * * *
41970 TTTAGGTTTAAGAAATTTAGGGATTTTGGGATTTTTGGGGTTGTTGGGTTTGGGGATTTTGG
1 TTTAGGTTTAA-AAATTTAGGGATTTTGAGATTTTTAGGGTTGTTAGGTTTGGAGAATTTGG
* *
42032 TTTAAGTTTAAAAATTTGGGGATTT
1 TTTAGGTTTAAAAATTTAGGGATTT
42057 AGGTTTCAAA
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
61 13 0.17
62 48 0.63
63 15 0.20
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.49
Consensus pattern (61 bp):
TTTAGGTTTAAAAATTTAGGGATTTTGAGATTTTTAGGGTTGTTAGGTTTGGAGAATTTGG
Found at i:42062 original size:22 final size:24
Alignment explanation
Indices: 42032--42080 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
42022 GGGATTTTGG
*
42032 TTTAAGTTT-AAA-AATTTGGGGA
1 TTTAAGTTTCAAATAATTTGGAGA
* *
42054 TTTAGGTTTCAAATATTTTGGAGA
1 TTTAAGTTTCAAATAATTTGGAGA
42078 TTT
1 TTT
42081 TTAGTGTTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 8 0.36
23 3 0.14
24 11 0.50
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.47
Consensus pattern (24 bp):
TTTAAGTTTCAAATAATTTGGAGA
Found at i:52956 original size:2 final size:2
Alignment explanation
Indices: 52938--52975 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
52928 TTTGTACTAT
* *
52938 GA GA AA GA GA AA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
52976 CCATATATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (2 bp):
GA
Found at i:61116 original size:27 final size:27
Alignment explanation
Indices: 61086--61137 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
61076 TAGGATAAGC
*
61086 ATGCCTTAATCGTCTATGCCATAAAGG
1 ATGCCTTAATAGTCTATGCCATAAAGG
*
61113 ATGCCTTAATAGTCTATGTCATAAA
1 ATGCCTTAATAGTCTATGCCATAAA
61138 TCCATAGTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (27 bp):
ATGCCTTAATAGTCTATGCCATAAAGG
Found at i:64197 original size:20 final size:20
Alignment explanation
Indices: 64172--64216 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
64162 CATGATTTGT
*
64172 ATTAAGAGTAAATAG-GCTTA
1 ATTAAGAGTAAA-AGAGATTA
*
64192 ATTAAGATTAAAAGAGATTA
1 ATTAAGAGTAAAAGAGATTA
64212 ATTAA
1 ATTAA
64217 ATCTTAATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 2 0.09
20 20 0.91
ACGTcount: A:0.51, C:0.02, G:0.16, T:0.31
Consensus pattern (20 bp):
ATTAAGAGTAAAAGAGATTA
Found at i:72517 original size:195 final size:196
Alignment explanation
Indices: 72261--72624 Score: 506
Period size: 195 Copynumber: 1.9 Consensus size: 196
72251 GTAAACTACC
*
72261 CCCTAATGATGCTACTCACACAAGCTGTTGAGAATATGCATTCAAGCATAAATCACAGCCATCGT
1 CCCTAATGATGCTACTCACACAAGCTGTCGAGAATATGCATTCAAGCATAAATCACAGCCATCGT
* * * *
72326 AGGTCTTATAATCCATT-TAGAATTTTATATCTCTT-TTT-C-GACTCATGATGCTACTCACACG
66 AGGGCTTATAATCCATTCTAGAA-TTCAT-T-TCTTATTTCCTGACTCACGATGCTACTCACACA
* *
72387 AGTTGTCGAGGACTTGCAACATATGCGATACCTCAACCATCGATACGATATCTATGCATATAATT
128 AGCTGTCGAGGACTCGCAACATATGCGATACCTCAACCATCGATACGATATCTATGCATATAATT
72452 ATTT
193 ATTT
* *
72456 CCCTAATGATGCTACTCACACGAGCTGTCGAGAATATGCACTT-ATGCATAAAT-ATCAGCCATC
1 CCCTAATGATGCTACTCACACAAGCTGTCGAGAATATGCA-TTCAAGCATAAATCA-CAGCCATC
* * * *
72519 GTAGGGCTTGTAATCCATTCTTGGATTCATTTCTTATTTCCTGACTCACGATGCTTCTCACACAA
64 GTAGGGCTTATAATCCATTCTAGAATTCATTTCTTATTTCCTGACTCACGATGCTACTCACACAA
* *
72584 GCTGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATCG
129 GCTGTCGAGGACTCGCAACATATGCGATACCTCAACCATCG
72625 CGTCGGTTTC
Statistics
Matches: 148, Mismatches: 15, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
193 4 0.03
194 5 0.03
195 77 0.52
196 62 0.42
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (196 bp):
CCCTAATGATGCTACTCACACAAGCTGTCGAGAATATGCATTCAAGCATAAATCACAGCCATCGT
AGGGCTTATAATCCATTCTAGAATTCATTTCTTATTTCCTGACTCACGATGCTACTCACACAAGC
TGTCGAGGACTCGCAACATATGCGATACCTCAACCATCGATACGATATCTATGCATATAATTATT
T
Found at i:72914 original size:73 final size:73
Alignment explanation
Indices: 72795--72939 Score: 254
Period size: 73 Copynumber: 2.0 Consensus size: 73
72785 GGCTCTAATC
* * *
72795 TAGACAAGTGATCATCTACTGGGTTCTTTACGCCTCTTCGATCTTGAATTTTTAGATCGAACTCT
1 TAGACAAGTGATCATCTACTAGGTTCTCTACGCCTCTTCGATCTTGAATTTTTAGATCAAACTCT
72860 TGAAGTAA
66 TGAAGTAA
*
72868 TAGACAAGTGATCATTTACTAGGTTCTCTACGCCTCTTCGATCTTGAATTTTTAGATCAAACTCT
1 TAGACAAGTGATCATCTACTAGGTTCTCTACGCCTCTTCGATCTTGAATTTTTAGATCAAACTCT
72933 TGAAGTA
66 TGAAGTA
72940 GAATCAGTCT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
73 68 1.00
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (73 bp):
TAGACAAGTGATCATCTACTAGGTTCTCTACGCCTCTTCGATCTTGAATTTTTAGATCAAACTCT
TGAAGTAA
Found at i:79554 original size:1 final size:1
Alignment explanation
Indices: 79548--79575 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
79538 NNNNNNNNNN
79548 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
79576 GCAATTAAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:79806 original size:10 final size:9
Alignment explanation
Indices: 79791--79926 Score: 74
Period size: 9 Copynumber: 14.2 Consensus size: 9
79781 TAAAAAAACA
*
79791 ATAAAAGTT
1 ATAAAAATT
79800 ATAAAAATT
1 ATAAAAATT
**
79809 ATTAAATTTT
1 A-TAAAAATT
79819 AATAAAAATT
1 -ATAAAAATT
79829 ATAAAAATAT
1 ATAAAAAT-T
* **
79839 TTAAATTTTT
1 ATAAA-AATT
* *
79849 TTTAAAATT
1 ATAAAAATT
79858 ATAAAAATAT
1 ATAAAAAT-T
* **
79868 TTAAATTTT
1 ATAAAAATT
79877 ATTAAAAATT
1 A-TAAAAATT
*
79887 ATAAAAAAT
1 ATAAAAATT
*
79896 ATAAAATTCGT
1 ATAAAAAT--T
*
79907 AAAAAAATT
1 ATAAAAATT
79916 ATAAAAATT
1 ATAAAAATT
79925 AT
1 AT
79927 CATACTAAAA
Statistics
Matches: 94, Mismatches: 25, Indels: 16
0.70 0.19 0.12
Matches are distributed among these distances:
9 50 0.53
10 35 0.37
11 9 0.10
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (9 bp):
ATAAAAATT
Found at i:79823 original size:29 final size:28
Alignment explanation
Indices: 79790--79923 Score: 153
Period size: 29 Copynumber: 4.6 Consensus size: 28
79780 ATAAAAAAAC
*
79790 AATAAAAGTTATAAAAATTATTAAATTTT
1 AATAAAAATTATAAAAA-TATTAAATTTT
79819 AATAAAAATTATAAAAATATTTAAATTTT
1 AATAAAAATTATAAAAATA-TTAAATTTT
** *
79848 TTTTAAAATTATAAAAATATTTAAATTTT
1 AATAAAAATTATAAAAATA-TTAAATTTT
* * *
79877 ATTAAAAATTATAAAAAATATAAAATTCGT
1 AATAAAAATTAT-AAAAATATTAAATT-TT
79907 AA-AAAAATTATAAAAAT
1 AATAAAAATTATAAAAAT
79924 TATCATACTA
Statistics
Matches: 93, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
28 8 0.09
29 76 0.82
30 9 0.10
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (28 bp):
AATAAAAATTATAAAAATATTAAATTTT
Found at i:82224 original size:17 final size:17
Alignment explanation
Indices: 82202--82246 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
82192 TGCCAAATCT
*
82202 ACTTCAATTCCTCACCG
1 ACTTCATTTCCTCACCG
82219 ACTTCATTTCCTCACCG
1 ACTTCATTTCCTCACCG
82236 ACTTCATTTCC
1 ACTTCATTTCC
82247 ACACTAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.20, C:0.40, G:0.04, T:0.36
Consensus pattern (17 bp):
ACTTCATTTCCTCACCG
Found at i:83612 original size:66 final size:66
Alignment explanation
Indices: 83435--83612 Score: 311
Period size: 66 Copynumber: 2.7 Consensus size: 66
83425 TGTATGATTG
* * *
83435 TATGATTGGGTTAAACGGTGTGAAACCTTTGGAGTTCAAATCCTTAGTCATATCAATTCATAAGT
1 TATGATTTGGTTAAACAGTGTGAAACCTTTGGAGTTCAAATCCTTTGTCATATCAATTCATAAGT
83500 A
66 A
83501 TATGATTTGGTTAAACAGTGTGAAACCTTTGGAGTTCAAATCCTTTGTCATATCAATTCATAAGT
1 TATGATTTGGTTAAACAGTGTGAAACCTTTGGAGTTCAAATCCTTTGTCATATCAATTCATAAGT
83566 A
66 A
* *
83567 TATGATTTGGTTAAACACTGTGAAACCTTTGGAATTCAAATCCTTT
1 TATGATTTGGTTAAACAGTGTGAAACCTTTGGAGTTCAAATCCTTT
83613 CATCAGATCA
Statistics
Matches: 107, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 107 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.37
Consensus pattern (66 bp):
TATGATTTGGTTAAACAGTGTGAAACCTTTGGAGTTCAAATCCTTTGTCATATCAATTCATAAGT
A
Found at i:90830 original size:18 final size:17
Alignment explanation
Indices: 90797--90830 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
90787 ATATGATTAT
*
90797 ATAAAAATTTTCAATAA
1 ATAAAAATTTTAAATAA
90814 ATAAAAATTATTAAATA
1 ATAAAAATT-TTAAATA
90831 TTAAAATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (17 bp):
ATAAAAATTTTAAATAA
Found at i:90837 original size:22 final size:22
Alignment explanation
Indices: 90812--90854 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
90802 AATTTTCAAT
*
90812 AAATAAAA-ATTATTAAATATTA
1 AAATAAAACAATA-TAAATATTA
90834 AAATAAAACAATATAAATATT
1 AAATAAAACAATATAAATATT
90855 TTTAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
AAATAAAACAATATAAATATTA
Found at i:92232 original size:22 final size:22
Alignment explanation
Indices: 92203--92290 Score: 88
Period size: 22 Copynumber: 4.0 Consensus size: 22
92193 AAAATTTATA
92203 TTATTGTTTTGGTGCTGTTTTT
1 TTATTGTTTTGGTGCTGTTTTT
* *
92225 TTGTTGTTTTGGTTGCT-ATTTT
1 TTATTGTTTTGG-TGCTGTTTTT
* * *
92247 TTACTGTTTTGGTGTTATTTTT
1 TTATTGTTTTGGTGCTGTTTTT
* * *
92269 TTACTATTTTGGTGTTGTTTTT
1 TTATTGTTTTGGTGCTGTTTTT
92291 ATTGTTATTT
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
21 3 0.05
22 49 0.88
23 4 0.07
ACGTcount: A:0.07, C:0.05, G:0.20, T:0.68
Consensus pattern (22 bp):
TTATTGTTTTGGTGCTGTTTTT
Found at i:92296 original size:12 final size:12
Alignment explanation
Indices: 92281--92314 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
92271 ACTATTTTGG
*
92281 TGTTGTTTTTAT
1 TGTTATTTTTAT
*
92293 TGTTATTTTTGT
1 TGTTATTTTTAT
92305 TGTTATTTTT
1 TGTTATTTTT
92315 TCTTTTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.09, C:0.00, G:0.15, T:0.76
Consensus pattern (12 bp):
TGTTATTTTTAT
Found at i:92322 original size:24 final size:23
Alignment explanation
Indices: 92253--92327 Score: 80
Period size: 24 Copynumber: 3.2 Consensus size: 23
92243 TTTTTTACTG
*
92253 TTTTGGTGTTATTTTTTTACTA-
1 TTTTGGTGTTATTTTTTTATTAT
* *
92275 TTTTGGTGTTGTTTTTATTGTTAT
1 TTTTGGTGTTATTTTT-TTATTAT
* *
92299 TTTTGTTGTTATTTTTTCTTTTAT
1 TTTTGGTGTTATTTTTT-TATTAT
92323 TTTTG
1 TTTTG
92328 CTGCTGTTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
22 15 0.34
23 5 0.11
24 24 0.55
ACGTcount: A:0.09, C:0.03, G:0.15, T:0.73
Consensus pattern (23 bp):
TTTTGGTGTTATTTTTTTATTAT
Found at i:92337 original size:24 final size:25
Alignment explanation
Indices: 92286--92349 Score: 69
Period size: 24 Copynumber: 2.6 Consensus size: 25
92276 TTTGGTGTTG
* *
92286 TTTTTATTGTTATTTTTGTTGTTAT
1 TTTTTATTGTTATTTTTGCTGCTAT
* *
92311 TTTTTCTT-TTATTTTTGCTGCT-G
1 TTTTTATTGTTATTTTTGCTGCTAT
*
92334 TTTTGATTGTTATTTT
1 TTTTTATTGTTATTTT
92350 GGTTGTTTAG
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
23 6 0.19
24 19 0.59
25 7 0.22
ACGTcount: A:0.09, C:0.05, G:0.12, T:0.73
Consensus pattern (25 bp):
TTTTTATTGTTATTTTTGCTGCTAT
Found at i:92343 original size:48 final size:46
Alignment explanation
Indices: 92253--92356 Score: 127
Period size: 48 Copynumber: 2.2 Consensus size: 46
92243 TTTTTTACTG
* * * *
92253 TTTTGGTGTTATTTTTTTACTATTTTGGTGTTGTTTTTATTGTTAT
1 TTTTGTTGTTATTTTTTTACTATTTTGCTGCTGTTTTGATTGTTAT
**
92299 TTTTGTTGTTATTTTTTCTTTTATTTTTGCTGCTGTTTTGATTGTTAT
1 TTTTGTTGTTATTTTTT-TACTA-TTTTGCTGCTGTTTTGATTGTTAT
*
92347 TTTGGTTGTT
1 TTTTGTTGTT
92357 TAGATGCTAT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
46 16 0.33
47 3 0.06
48 30 0.61
ACGTcount: A:0.09, C:0.04, G:0.17, T:0.70
Consensus pattern (46 bp):
TTTTGTTGTTATTTTTTTACTATTTTGCTGCTGTTTTGATTGTTAT
Found at i:95606 original size:21 final size:21
Alignment explanation
Indices: 95580--95630 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
95570 CAGTAGCAAA
95580 ATTCTACCGATACTTGTGATG
1 ATTCTACCGATACTTGTGATG
95601 ATTCTACCGATACTTGTGATG
1 ATTCTACCGATACTTGTGATG
95622 ATTCTACCG
1 ATTCTACCG
95631 TTACACGACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.37
Consensus pattern (21 bp):
ATTCTACCGATACTTGTGATG
Found at i:105248 original size:19 final size:19
Alignment explanation
Indices: 105226--105263 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
105216 TTCTTGTTTC
**
105226 TTGTTTGTTGTTTAGTGGG
1 TTGTTTGTTACTTAGTGGG
105245 TTGTTTGTTACTTAGTGGG
1 TTGTTTGTTACTTAGTGGG
105264 GTGGAGTCCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.08, C:0.03, G:0.34, T:0.55
Consensus pattern (19 bp):
TTGTTTGTTACTTAGTGGG
Found at i:106265 original size:23 final size:22
Alignment explanation
Indices: 106224--106266 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
106214 CGAAAAAAAT
* *
106224 AAAGAAATTCATGATAATCTCC
1 AAAGAAATTAATGAGAATCTCC
106246 AAAGAAATTAAATGAGAATCT
1 AAAGAAATT-AATGAGAATCT
106267 TCAATCTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.51, C:0.12, G:0.12, T:0.26
Consensus pattern (22 bp):
AAAGAAATTAATGAGAATCTCC
Found at i:112625 original size:36 final size:36
Alignment explanation
Indices: 112585--112678 Score: 86
Period size: 36 Copynumber: 2.6 Consensus size: 36
112575 TAATTATCTT
*
112585 AATATTAAATTTAATTTAATATTTATTT-TGTACATA
1 AATATT-AATTTAATTTAATATTTATTTATCTACATA
* * **
112621 AATATT-CTGTTAATTTAATATATATTTATCTTGATA
1 AATATTAAT-TTAATTTAATATTTATTTATCTACATA
*
112657 AGTATT-ATATTAATTTAATATT
1 AATATTAAT-TTAATTTAATATT
112679 AAAGTGATTA
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
34 1 0.02
35 17 0.36
36 29 0.62
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.53
Consensus pattern (36 bp):
AATATTAATTTAATTTAATATTTATTTATCTACATA
Found at i:119975 original size:29 final size:29
Alignment explanation
Indices: 119931--119991 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
119921 TTCAGTATAA
* *
119931 TCAGCAGATTCGCTCGTTTAAGCAAGCAT
1 TCAGCAGATTCACTCGCTTAAGCAAGCAT
* *
119960 TCAGTAGATTCACTCGCTTGAGCAAGCAT
1 TCAGCAGATTCACTCGCTTAAGCAAGCAT
119989 TCA
1 TCA
119992 ATATAATCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (29 bp):
TCAGCAGATTCACTCGCTTAAGCAAGCAT
Found at i:120044 original size:38 final size:38
Alignment explanation
Indices: 119960--120047 Score: 131
Period size: 38 Copynumber: 2.3 Consensus size: 38
119950 AAGCAAGCAT
119960 TCAGTAGATTCACTCGCTTGAGCAAGCATTCAATATAA
1 TCAGTAGATTCACTCGCTTGAGCAAGCATTCAATATAA
* * * *
119998 TCAATAGATTCACTCGCTTGAGTAAGCATTCAGTATAT
1 TCAGTAGATTCACTCGCTTGAGCAAGCATTCAATATAA
*
120036 TTAGTAGATTCA
1 TCAGTAGATTCA
120048 TTTCGTTTCA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (38 bp):
TCAGTAGATTCACTCGCTTGAGCAAGCATTCAATATAA
Found at i:132369 original size:50 final size:50
Alignment explanation
Indices: 132310--132455 Score: 188
Period size: 50 Copynumber: 2.9 Consensus size: 50
132300 AACCAAATAG
132310 AGCCTATGTGGCATATTATTTAGAAAGCCTTTGTGGTGAGTTATCCGAAA
1 AGCCTATGTGGCATATTATTTAGAAAGCCTTTGTGGTGAGTTATCCGAAA
* * ** *
132360 AGCCTATGTGGCATATTATCT-GAAAAGCCTTTGAGACGAGTTATCTGAAA
1 AGCCTATGTGGCATATTATTTAG-AAAGCCTTTGTGGTGAGTTATCCGAAA
* *
132410 CGCCTATGTGGCATATTATTTA-AGAAGCCTTAGTGGTGAAGTTATC
1 AGCCTATGTGGCATATTATTTAGA-AAGCCTTTGTGGTG-AGTTATC
132456 TAGAAAACTT
Statistics
Matches: 81, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
49 2 0.02
50 72 0.89
51 7 0.09
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (50 bp):
AGCCTATGTGGCATATTATTTAGAAAGCCTTTGTGGTGAGTTATCCGAAA
Found at i:132439 original size:25 final size:25
Alignment explanation
Indices: 132310--132428 Score: 102
Period size: 25 Copynumber: 4.8 Consensus size: 25
132300 AACCAAATAG
*
132310 AGCCTATGTGGCATATTAT-TTAGAA
1 AGCCTATGTGGCATATTATCTGA-AA
* *
132335 AGCCTTTGTGG--TGAGTTATCCGAAA
1 AGCCTATGTGGCAT-A-TTATCTGAAA
132360 AGCCTATGTGGCATATTATCTGAAA
1 AGCCTATGTGGCATATTATCTGAAA
* * * *
132385 AGCCTTTGAGACGA-GTTATCTGAAA
1 AGCCTATGTGGC-ATATTATCTGAAA
*
132410 CGCCTATGTGGCATATTAT
1 AGCCTATGTGGCATATTAT
132429 TTAAGAAGCC
Statistics
Matches: 73, Mismatches: 14, Indels: 14
0.72 0.14 0.14
Matches are distributed among these distances:
23 1 0.01
24 2 0.03
25 66 0.90
26 3 0.04
27 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.33
Consensus pattern (25 bp):
AGCCTATGTGGCATATTATCTGAAA
Found at i:141963 original size:21 final size:21
Alignment explanation
Indices: 141931--141986 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
141921 GGAGTTTTTA
*
141931 GTATCAGTAGAAGTAAG-ACTT
1 GTATCGGTAGAAGT-AGCACTT
*
141952 GTTTCGGTAGAAG-AGTCACTT
1 GTATCGGTAGAAGTAG-CACTT
141973 GTATCGGTAGAAGT
1 GTATCGGTAGAAGT
141987 CTACACTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 2 0.07
21 27 0.93
ACGTcount: A:0.30, C:0.11, G:0.29, T:0.30
Consensus pattern (21 bp):
GTATCGGTAGAAGTAGCACTT
Found at i:153011 original size:13 final size:13
Alignment explanation
Indices: 152993--153017 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
152983 TCACATTTAT
152993 CATTTTTAGCATG
1 CATTTTTAGCATG
153006 CATTTTTAGCAT
1 CATTTTTAGCAT
153018 TTTCAACTTA
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:0.24, C:0.16, G:0.12, T:0.48
Consensus pattern (13 bp):
CATTTTTAGCATG
Found at i:155861 original size:26 final size:26
Alignment explanation
Indices: 155821--155879 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 26
155811 ATGAATTTGG
* * *
155821 AATTAATTATGTTTAAATTTGTATTT
1 AATTAATAATGTTTAAATTTATAATT
* **
155847 AATTAATAATTTTTATGTTTATAATT
1 AATTAATAATGTTTAAATTTATAATT
155873 AATTAAT
1 AATTAAT
155880 TAATCTCTGT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (26 bp):
AATTAATAATGTTTAAATTTATAATT
Found at i:156078 original size:14 final size:14
Alignment explanation
Indices: 156032--156122 Score: 58
Period size: 14 Copynumber: 6.3 Consensus size: 14
156022 TTTTTTAAAA
*
156032 TTTTGAGGTTTAAAG
1 TTTTGA-GTTTAAGG
* *
156047 TTTAGGGTTT-AGG
1 TTTTGAGTTTAAGG
156060 ATTTTGAGTTTAAGG
1 -TTTTGAGTTTAAGG
*
156075 TTTTATATGTTTAAGG
1 TTTT-GA-GTTTAAGG
* *
156091 TTTTGGGTGTAAGG
1 TTTTGAGTTTAAGG
* * *
156105 TTTAGTGTTTAATG
1 TTTTGAGTTTAAGG
156119 TTTT
1 TTTT
156123 AGGTTTAGGG
Statistics
Matches: 58, Mismatches: 14, Indels: 9
0.72 0.17 0.11
Matches are distributed among these distances:
13 2 0.03
14 36 0.62
15 8 0.14
16 12 0.21
ACGTcount: A:0.21, C:0.00, G:0.27, T:0.52
Consensus pattern (14 bp):
TTTTGAGTTTAAGG
Found at i:158163 original size:23 final size:23
Alignment explanation
Indices: 158133--158282 Score: 80
Period size: 23 Copynumber: 6.4 Consensus size: 23
158123 ATGCTAGCGC
158133 GCTTACTGTTTCGCA-CTTCGTGT
1 GCTTACTGTTTCGCACCTT-GTGT
*
158156 GCTTACTGTTTCGTACCTTGTGT
1 GCTTACTGTTTCGCACCTTGTGT
* ** *
158179 GCCTACTGATTT-GC-GTTATGTGC
1 GCTTACTG-TTTCGCACCT-TGTGT
* *
158202 GCCTACTGATT-GCA-CTGTGTGT
1 GCTTACTGTTTCGCACCT-TGTGT
*
158224 GCTTACTGGATT-GCA-CTGTGTGT
1 GCTTACT-GTTTCGCACCT-TGTGT
* *
158247 GCTTACTATTTCCCCAGCACTTGTGT
1 GCTTACTGTTT-CGCA-C-CTTGTGT
158273 GCTTACTGTT
1 GCTTACTGTT
158283 AAGTACTTCG
Statistics
Matches: 102, Mismatches: 15, Indels: 17
0.76 0.11 0.13
Matches are distributed among these distances:
22 18 0.18
23 60 0.59
24 8 0.08
26 14 0.14
27 2 0.02
ACGTcount: A:0.12, C:0.23, G:0.23, T:0.41
Consensus pattern (23 bp):
GCTTACTGTTTCGCACCTTGTGT
Found at i:165449 original size:23 final size:22
Alignment explanation
Indices: 165419--165540 Score: 97
Period size: 23 Copynumber: 5.4 Consensus size: 22
165409 AACGCTAGCA
165419 TGCTTACTGTTTCGCACT-TCGTG
1 TGCTTACTGTTT-GCACTGT-GTG
*
165442 TGCTTACTGTTTCACACCT-TGTG
1 TGCTTACTGTTT-GCA-CTGTGTG
* *
165465 TG-TCTACTGATTTGCGCTATGTG
1 TGCT-TACTG-TTTGCACTGTGTG
* * *
165488 CGCCTACTGATTGCACTGTGTG
1 TGCTTACTGTTTGCACTGTGTG
*
165510 TGCTTACTGGATTGCACTGTGTG
1 TGCTTACT-GTTTGCACTGTGTG
165533 TGCTTACT
1 TGCTTACT
165541 ATTTCCCCAG
Statistics
Matches: 83, Mismatches: 10, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
22 19 0.23
23 58 0.70
24 6 0.07
ACGTcount: A:0.12, C:0.23, G:0.24, T:0.41
Consensus pattern (22 bp):
TGCTTACTGTTTGCACTGTGTG
Found at i:166268 original size:18 final size:18
Alignment explanation
Indices: 166245--166285 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
166235 GTTTCGCTCA
166245 TGCTCGGGCTTC-GGATCG
1 TGCTCGGGC-TCGGGATCG
166263 TGCTCGGGCTCGGGATCG
1 TGCTCGGGCTCGGGATCG
*
166281 AGCTC
1 TGCTC
166286 ATGTTCAGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 2 0.10
18 19 0.90
ACGTcount: A:0.07, C:0.29, G:0.39, T:0.24
Consensus pattern (18 bp):
TGCTCGGGCTCGGGATCG
Found at i:174065 original size:3 final size:3
Alignment explanation
Indices: 174057--174092 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
174047 CGATGTTTTA
174057 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
174093 GTTAATAAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:177734 original size:14 final size:14
Alignment explanation
Indices: 177715--177746 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
177705 CGCCGACAAT
177715 GAAAGCAAGGTTGA
1 GAAAGCAAGGTTGA
177729 GAAAGCAAGGTTGA
1 GAAAGCAAGGTTGA
177743 GAAA
1 GAAA
177747 TGAAAGCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.47, C:0.06, G:0.34, T:0.12
Consensus pattern (14 bp):
GAAAGCAAGGTTGA
Found at i:192606 original size:3 final size:3
Alignment explanation
Indices: 192598--192622 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
192588 CGATGTTTTA
192598 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
192623 TGATATAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:194317 original size:28 final size:28
Alignment explanation
Indices: 194269--194347 Score: 78
Period size: 28 Copynumber: 2.9 Consensus size: 28
194259 TATTTAATCA
* *
194269 AAAATTAAATT-ATATCAAACAACATTTTT
1 AAAATTAAATTAAAATC-AACAACA-ATTT
194298 AAAA-TAAATTAAAATCAACAA-AATTT
1 AAAATTAAATTAAAATCAACAACAATTT
194324 AAAATTTAAATTAAAA-CAA-AACAA
1 AAAA-TTAAATTAAAATCAACAACAA
194348 AACCCTAAAC
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
26 9 0.20
27 6 0.14
28 21 0.48
29 8 0.18
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.29
Consensus pattern (28 bp):
AAAATTAAATTAAAATCAACAACAATTT
Found at i:194755 original size:9 final size:9
Alignment explanation
Indices: 194741--194765 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
194731 CTAAACCCAT
194741 ATTTTTTTA
1 ATTTTTTTA
194750 ATTTTTTTA
1 ATTTTTTTA
194759 ATTTTTT
1 ATTTTTT
194766 AATATTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (9 bp):
ATTTTTTTA
Found at i:194971 original size:29 final size:29
Alignment explanation
Indices: 194929--194984 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
194919 TTGGGTAAAA
194929 AAATCTTACATTTTAGTCACTTACGTTTG
1 AAATCTTACATTTTAGTCACTTACGTTTG
* *
194958 AAATGTTACGTTTTAGTCACTTACGTT
1 AAATCTTACATTTTAGTCACTTACGTT
194985 ATCGTTTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.27, C:0.16, G:0.12, T:0.45
Consensus pattern (29 bp):
AAATCTTACATTTTAGTCACTTACGTTTG
Found at i:195147 original size:18 final size:18
Alignment explanation
Indices: 195107--195149 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
195097 TTTTCAATTG
195107 TAATTAATTTAAAATTTT
1 TAATTAATTTAAAATTTT
* *
195125 CAATTAA-TTAAATTTATT
1 TAATTAATTTAAAATT-TT
195143 TAATTAA
1 TAATTAA
195150 AATTTTATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TAATTAATTTAAAATTTT
Found at i:196342 original size:15 final size:15
Alignment explanation
Indices: 196317--196379 Score: 72
Period size: 15 Copynumber: 4.2 Consensus size: 15
196307 AGTTCACAAG
*
196317 TAAACAATTCGCATA
1 TAAACAGTTCGCATA
*
196332 TGAACAGTTCGCATA
1 TAAACAGTTCGCATA
* *
196347 TAAATAGTTCACATA
1 TAAACAGTTCGCATA
* *
196362 TAAATAGTTCGCAAA
1 TAAACAGTTCGCATA
196377 TAA
1 TAA
196380 GCAATTTGCA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 41 1.00
ACGTcount: A:0.44, C:0.16, G:0.11, T:0.29
Consensus pattern (15 bp):
TAAACAGTTCGCATA
Found at i:197181 original size:40 final size:39
Alignment explanation
Indices: 197137--197269 Score: 119
Period size: 41 Copynumber: 3.3 Consensus size: 39
197127 TAGTAATTCC
*
197137 TAATTTTTGGTATCCCT-TCATGTTATTTGGTATTCTCTCA
1 TAATTTTTGGTAT-CCTATCAT-TTATTTGGTATTCCCTCA
* *
197177 TAA-TTTTGGTATTTCCTCA-CATTTTTTTGGTATTCCCTAA
1 TAATTTTTGGTA--TCCT-ATCATTTATTTGGTATTCCCTCA
* *
197217 TAATTTTTTGTATTCTATCATATTTATTTGGTATTCCCTCA
1 TAATTTTTGGTATCCTATC--ATTTATTTGGTATTCCCTCA
* *
197258 GAATTCTTGGTA
1 TAATTTTTGGTA
197270 CTTCCTAAAA
Statistics
Matches: 75, Mismatches: 10, Indels: 15
0.75 0.10 0.15
Matches are distributed among these distances:
38 1 0.01
39 12 0.16
40 24 0.32
41 38 0.51
ACGTcount: A:0.20, C:0.16, G:0.11, T:0.53
Consensus pattern (39 bp):
TAATTTTTGGTATCCTATCATTTATTTGGTATTCCCTCA
Found at i:197223 original size:21 final size:21
Alignment explanation
Indices: 197140--197262 Score: 96
Period size: 21 Copynumber: 6.0 Consensus size: 21
197130 TAATTCCTAA
*
197140 TTTTTGGTA-TCCCTTCAT-GT
1 TTTTTGGTATTCCC-TCATAAT
* *
197160 TATTTGGTATTCTCTCATAA-
1 TTTTTGGTATTCCCTCATAAT
* * *
197180 -TTTTGGTATTTCCTCACATT
1 TTTTTGGTATTCCCTCATAAT
*
197200 TTTTTGGTATTCCCTAATAAT
1 TTTTTGGTATTCCCTCATAAT
**
197221 TTTTT-GTATTCTATCAT-AT
1 TTTTTGGTATTCCCTCATAAT
*
197240 TTATTTGGTATTCCCTCAGAAT
1 TT-TTTGGTATTCCCTCATAAT
197262 T
1 T
197263 CTTGGTACTT
Statistics
Matches: 78, Mismatches: 18, Indels: 12
0.72 0.17 0.11
Matches are distributed among these distances:
19 18 0.23
20 24 0.31
21 33 0.42
22 3 0.04
ACGTcount: A:0.20, C:0.16, G:0.11, T:0.54
Consensus pattern (21 bp):
TTTTTGGTATTCCCTCATAAT
Found at i:197269 original size:20 final size:20
Alignment explanation
Indices: 197137--197289 Score: 107
Period size: 20 Copynumber: 7.6 Consensus size: 20
197127 TAGTAATTCC
197137 TAATTTTTGGTA-TCCCTTCA
1 TAATTTTTGGTATTCCC-TCA
* *
197157 T-GTTATTTGGTATTCTCTCA
1 TAATT-TTTGGTATTCCCTCA
*
197177 TAA-TTTTGGTATTTCCTCA
1 TAATTTTTGGTATTCCCTCA
* * *
197196 CATTTTTTTGGTATTCCCTAA
1 TA-ATTTTTGGTATTCCCTCA
* **
197217 TAATTTTTTGTATTCTATCA
1 TAATTTTTGGTATTCCCTCA
*
197237 TATTTATTTGGTATTCCCTCA
1 TAATT-TTTGGTATTCCCTCA
* * *
197258 GAATTCTTGGTACTT-CCTAA
1 TAATTTTTGGTA-TTCCCTCA
*
197278 AAATTTTTGGTA
1 TAATTTTTGGTA
197290 ATCTTTCAAA
Statistics
Matches: 101, Mismatches: 25, Indels: 14
0.72 0.18 0.10
Matches are distributed among these distances:
19 16 0.16
20 50 0.50
21 35 0.35
ACGTcount: A:0.22, C:0.16, G:0.11, T:0.52
Consensus pattern (20 bp):
TAATTTTTGGTATTCCCTCA
Done.