Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001939.1 Hibiscus syriacus cultivar Beakdansim tig00003925_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 59572
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Found at i:3413 original size:27 final size:28
Alignment explanation
Indices: 3383--3437 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
3373 AAAAGGGCCA
3383 AGAGAAA-CATTATTAAACTAAATTACC
1 AGAGAAATCATTATTAAACTAAATTACC
*
3410 AGAGAAATGTTATTATTAAACTAAATTA
1 AGAGAAA--TCATTATTAAACTAAATTA
3438 AACTAACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 7 0.29
30 17 0.71
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.31
Consensus pattern (28 bp):
AGAGAAATCATTATTAAACTAAATTACC
Found at i:10325 original size:79 final size:79
Alignment explanation
Indices: 10189--10347 Score: 246
Period size: 79 Copynumber: 2.0 Consensus size: 79
10179 TTGCTAGGTG
* *
10189 TCTAGTGTGCCAGCAGGTTAAAGAAAAACACTAGGTTCCCTCAGGACTACTTTAGCCCATTCAGA
1 TCTAATGTGCCAGCAGGTTAAAGAAAAACACCAGGTTCCCTCAGGACTACTTTAGCCCATTCAGA
*
10254 TTCCTCGTTGGAAA
66 TTCCTCATTGGAAA
* * * * *
10268 TCTAATGTGCCAGTAGGTTAAAGCATAACACCAGGTTCCCTTAGGATTACTTTAGCCCATTCAGA
1 TCTAATGTGCCAGCAGGTTAAAGAAAAACACCAGGTTCCCTCAGGACTACTTTAGCCCATTCAGA
10333 TTCCTCATTGGAAA
66 TTCCTCATTGGAAA
10347 T
1 T
10348 GGGACAGAGT
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
79 72 1.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (79 bp):
TCTAATGTGCCAGCAGGTTAAAGAAAAACACCAGGTTCCCTCAGGACTACTTTAGCCCATTCAGA
TTCCTCATTGGAAA
Found at i:14011 original size:37 final size:37
Alignment explanation
Indices: 13921--14025 Score: 129
Period size: 37 Copynumber: 2.8 Consensus size: 37
13911 CCTTTTTGTC
* *
13921 CTACTAGGATTCAAACTACTAAAATTAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
13958 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
** * *
13995 CTACTATTATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
14026 CCACAAGCCT
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.31
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:14448 original size:14 final size:15
Alignment explanation
Indices: 14431--14460 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
14421 TATATGTATA
14431 TATTTATTAT-ATTT
1 TATTTATTATAATTT
14445 TATTTATTATAATTT
1 TATTTATTATAATTT
14460 T
1 T
14461 TTTTCATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TATTTATTATAATTT
Found at i:14569 original size:13 final size:13
Alignment explanation
Indices: 14551--14576 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
14541 TGTTTACTTA
14551 TTTACTATATTTT
1 TTTACTATATTTT
14564 TTTACTATATTTT
1 TTTACTATATTTT
14577 CCTAATGTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTACTATATTTT
Found at i:14591 original size:31 final size:30
Alignment explanation
Indices: 14523--14591 Score: 70
Period size: 31 Copynumber: 2.3 Consensus size: 30
14513 ATATATTATA
*
14523 TTAT-TATTTTTTTATCTATGTTTACTTAT
1 TTATATATTTTTTTATCTATGTTTACTAAT
* *
14552 TTACTATATTTTTTTA-CTATATTTTCCTAAT
1 TTA-TATATTTTTTTATCTAT-GTTTACTAAT
14583 GTTATATAT
1 -TTATATAT
14592 ATATATATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
29 3 0.09
30 5 0.15
31 22 0.67
32 3 0.09
ACGTcount: A:0.25, C:0.09, G:0.03, T:0.64
Consensus pattern (30 bp):
TTATATATTTTTTTATCTATGTTTACTAAT
Found at i:14753 original size:26 final size:26
Alignment explanation
Indices: 14665--14782 Score: 68
Period size: 25 Copynumber: 4.4 Consensus size: 26
14655 TATGTATGTT
14665 TATTTTTCATTTATTTATTATTAT-TATTA
1 TATTTTT-A-TTATTTA-TATTATATA-TA
* * *
14694 CTATTTAGTATTTTATTATATTATACATA
1 -TATTT-TTATTAT-TTATATTATATATA
*
14723 CATTTTTA-TATTTATA-TATATATA
1 TATTTTTATTATTTATATTATATATA
14747 TATATTTTATTATTT-TATT-TATACTA
1 TAT-TTTTATTATTTATATTATATA-TA
14773 T-TTATTTATT
1 TATT-TTTATT
14783 TTCATTATAT
Statistics
Matches: 72, Mismatches: 8, Indels: 21
0.71 0.08 0.21
Matches are distributed among these distances:
24 10 0.14
25 23 0.32
26 11 0.15
27 2 0.03
28 4 0.06
29 11 0.15
30 10 0.14
31 1 0.01
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (26 bp):
TATTTTTATTATTTATATTATATATA
Found at i:17530 original size:15 final size:15
Alignment explanation
Indices: 17510--17552 Score: 86
Period size: 15 Copynumber: 2.9 Consensus size: 15
17500 AAGGATAACT
17510 CCTGAGAATCCAACG
1 CCTGAGAATCCAACG
17525 CCTGAGAATCCAACG
1 CCTGAGAATCCAACG
17540 CCTGAGAATCCAA
1 CCTGAGAATCCAA
17553 ATGGCTGATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.35, C:0.33, G:0.19, T:0.14
Consensus pattern (15 bp):
CCTGAGAATCCAACG
Found at i:19220 original size:16 final size:15
Alignment explanation
Indices: 19199--19248 Score: 68
Period size: 16 Copynumber: 3.3 Consensus size: 15
19189 AAAAGGGCAA
19199 AAAAAAGAAAAGAAGC
1 AAAAAAGAAAAGAA-C
19215 AAAAAAGAAGAA-AAC
1 AAAAAAGAA-AAGAAC
19230 AAAAAAG-AAAGAAC
1 AAAAAAGAAAAGAAC
19244 AAAAA
1 AAAAA
19249 TTAAAAAAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
13 2 0.06
14 9 0.28
15 8 0.25
16 11 0.34
17 2 0.06
ACGTcount: A:0.80, C:0.06, G:0.14, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAAAGAAC
Found at i:19225 original size:14 final size:14
Alignment explanation
Indices: 19199--19248 Score: 64
Period size: 15 Copynumber: 3.4 Consensus size: 14
19189 AAAAGGGCAA
19199 AAAAAAGAAAAGAAGC
1 AAAAAAG-AAAGAA-C
*
19215 AAAAAAGAAGAAAAC
1 AAAAAAGAA-AGAAC
19230 AAAAAAGAAAGAAC
1 AAAAAAGAAAGAAC
19244 AAAAA
1 AAAAA
19249 TTAAAAAAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
14 9 0.29
15 12 0.39
16 10 0.32
ACGTcount: A:0.80, C:0.06, G:0.14, T:0.00
Consensus pattern (14 bp):
AAAAAAGAAAGAAC
Found at i:19232 original size:15 final size:14
Alignment explanation
Indices: 19199--19262 Score: 65
Period size: 14 Copynumber: 4.4 Consensus size: 14
19189 AAAAGGGCAA
19199 AAAAAAGAAAAGAAGC
1 AAAAAAGAAAA-AA-C
19215 AAAAAAGAAGAAAAC
1 AAAAAAGAA-AAAAC
*
19230 AAAAAAGAAAGAAC
1 AAAAAAGAAAAAAC
** *
19244 AAAAATTAAAAAAG
1 AAAAAAGAAAAAAC
19258 AAAAA
1 AAAAA
19263 GGGACAAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
14 19 0.45
15 10 0.24
16 11 0.26
17 2 0.05
ACGTcount: A:0.80, C:0.05, G:0.12, T:0.03
Consensus pattern (14 bp):
AAAAAAGAAAAAAC
Found at i:19889 original size:22 final size:22
Alignment explanation
Indices: 19864--19919 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
19854 AATCACCCCA
19864 TCAAACCTTTGAGCATCAAATG
1 TCAAACCTTTGAGCATCAAATG
19886 TCAAACCTTTGAGCATCAAATG
1 TCAAACCTTTGAGCATCAAATG
*
19908 CCAAACCTTTGA
1 TCAAACCTTTGA
19920 CCAAACACAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.36, C:0.25, G:0.12, T:0.27
Consensus pattern (22 bp):
TCAAACCTTTGAGCATCAAATG
Found at i:20356 original size:18 final size:19
Alignment explanation
Indices: 20333--20369 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
20323 TCAACATCAA
*
20333 ATATTGTGGCATT-TTTGG
1 ATATTGAGGCATTATTTGG
20351 ATATTGAGGCATTATTTGG
1 ATATTGAGGCATTATTTGG
20370 GGATTCAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.22, C:0.05, G:0.27, T:0.46
Consensus pattern (19 bp):
ATATTGAGGCATTATTTGG
Found at i:21009 original size:106 final size:106
Alignment explanation
Indices: 20881--22153 Score: 1940
Period size: 106 Copynumber: 12.0 Consensus size: 106
20871 ATATCGTGCC
* * * * * *
20881 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGATTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
20946 AAATTCAGAGCCAATTTCAACTTCACAATGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
20987 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGAGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
21052 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
21093 ACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * * *
21158 AATTTCAAATCCAACTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
21199 ACTCAAGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAATAAA-AACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * * *
21263 AATTTTAGAGCTAATTTCAACTTTACAACGAAGGATATTAG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
21304 ACTCCAGACAACGCAAGTTTAACTTCACGACGAAGGGACCGTTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
21369 AATTTTAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
21410 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
21475 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * *
21516 ACTCGAGACAACGCAAATTCAACTTCGCGACGAAGGGACTGCT-GTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
21580 AATTTCGGAGCCAATTTCAACTTCACATCGAAAGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
21621 ACTCCAAACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGCTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * * *
21686 AATTTCTGAGTCAATTTCAACTTCACATCGAAGGATATT-A
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
21726 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
21791 AATTTCATAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
21832 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
21897 AATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
21938 ACTCGAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
22003 AATTTCGGAGCCAATTTCAACTTCACAACAAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * * *
22044 TCTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * * * * *
22109 GATTCCAGAGCCAATTTTAACTTCACGATGGAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
22150 ACTC
1 ACTC
22154 GGAACAATGC
Statistics
Matches: 1068, Mismatches: 96, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
105 283 0.26
106 785 0.74
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:21313 original size:317 final size:318
Alignment explanation
Indices: 20881--22154 Score: 1951
Period size: 317 Copynumber: 4.0 Consensus size: 318
20871 ATATCGTGCC
* * * * *
20881 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGATTGTCAATAAACAACTTCCC
1 ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
20946 AAATTCAGAGCCAATTTCAACTTCACAATGAAGGATATTGGACTCCAGACAACACAAGTTCAACT
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACT
* *
21011 TCACGACGAAGAGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTC
131 TCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTC
*
21076 ACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
196 ACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
* * * * * *
21141 TCAATAAACAATTTCCCAATTTCAAATCCAACTTCAACTTCACAGCGAAGGATATTGG
261 TCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
21199 ACTCAAGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAATAAA-AACTTCCC
1 ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * * * *
21263 AATTTTAGAGCTAATTTCAACTTTACAACGAAGGATATTAGACTCCAGACAACGCAAGTTTAACT
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACT
* * *
21328 TCACGACGAAGGGACCGTTGGTTGTCAACAAACAACTTCTCAATTTTAGAGCCAATTTCAACTTC
131 TCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTC
21393 ACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
196 ACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
21458 TCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
261 TCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
21516 ACTCGAGACAACGCAAATTCAACTTCGCGACGAAGGGACTGCT-GTTGTCAACAAACAATTTCCC
1 ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * * *
21580 AATTTCGGAGCCAATTTCAACTTCACATCGAAAGATATTGGACTCCAAACAACGCAAGTTCAACT
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACT
* * * *
21645 TCACGACGAAGGGACCGCTGGCTGTCAACAAACAATTTCCCAATTTCTGAGTCAATTTCAACTTC
131 TCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTC
* *
21710 ACATCGAAGGATATT-AACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
196 ACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
* *
21774 TCAACAAACAACTTCTCAATTTCATAGCCAATTTCAACTTCACAACGAAGGATATTGG
261 TCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
21832 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
1 ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
21897 AATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGGACTCGAGACAATGCAAGTTCAACT
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACT
* * *
21962 TCACGACGAAGGGACCGCTGGTTGTCAACAAATAATTTCCCAATTTCGGAGCCAATTTCAACTTC
131 TCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTC
* * * * * *
22027 ACAACAAAGGATATTGGTCTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTG
196 ACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
* * * * * * *
22092 TCAACAAACAATTTCCCGATTCCAGAGCCAATTTTAACTTCACGATGGAGGATATTGG
261 TCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
22150 ACTCG
1 ACTCG
22155 GAACAATGCT
Statistics
Matches: 870, Mismatches: 83, Indels: 6
0.91 0.09 0.01
Matches are distributed among these distances:
316 154 0.18
317 570 0.66
318 146 0.17
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (318 bp):
ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACT
TCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTC
ACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
TCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:21390 original size:211 final size:212
Alignment explanation
Indices: 20881--22153 Score: 1940
Period size: 211 Copynumber: 6.0 Consensus size: 212
20871 ATATCGTGCC
* * * * * *
20881 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGATTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
20946 AAATTCAGAGCCAATTTCAACTTCACAATGAAGGATATTGGACTCCAGACAACACAAGTTCAACT
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACT
* *
21011 TCACGACGAAGAGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTC
131 TCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTC
21076 ACAACGAAGGATATTGG
196 ACAACGAAGGATATTGG
* * *
21093 ACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * * * *
21158 AATTTCAAATCCAACTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACT
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACT
* * * * *
21223 TCATGACGAAGGGACCGCTGGTTGTCAATAAA-AACTTCCCAATTTTAGAGCTAATTTCAACTTT
131 TCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTC
*
21287 ACAACGAAGGATATTAG
196 ACAACGAAGGATATTGG
* * *
21304 ACTCCAGACAACGCAAGTTTAACTTCACGACGAAGGGACCGTTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
21369 AATTTTAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACT
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACT
21434 TCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTC
131 TCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTC
21499 ACAACGAAGGATATTGG
196 ACAACGAAGGATATTGG
* * * * *
21516 ACTCGAGACAACGCAAATTCAACTTCGCGACGAAGGGACTGCT-GTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * * *
21580 AATTTCGGAGCCAATTTCAACTTCACATCGAAAGATATTGGACTCCAAACAACGCAAGTTCAACT
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACT
* * * *
21645 TCACGACGAAGGGACCGCTGGCTGTCAACAAACAATTTCCCAATTTCTGAGTCAATTTCAACTTC
131 TCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTC
* *
21710 ACATCGAAGGATATT-A
196 ACAACGAAGGATATTGG
*
21726 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
21791 AATTTCATAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACT
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACT
21856 TCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTC
131 TCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTC
*
21921 ACATCGAAGGATATTGG
196 ACAACGAAGGATATTGG
* * * *
21938 ACTCGAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * * * *
22003 AATTTCGGAGCCAATTTCAACTTCACAACAAAGGATATTGGTCTCGAGACAACACAAGTTCAACT
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACT
* * * * * *
22068 TCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCGATTCCAGAGCCAATTTTAACTTC
131 TCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTC
* * *
22133 ACGATGGAGGATATTGG
196 ACAACGAAGGATATTGG
22150 ACTC
1 ACTC
22154 GGAACAATGC
Statistics
Matches: 961, Mismatches: 97, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
210 39 0.04
211 501 0.52
212 421 0.44
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (212 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACT
TCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTC
ACAACGAAGGATATTGG
Found at i:22955 original size:37 final size:37
Alignment explanation
Indices: 22902--23006 Score: 147
Period size: 37 Copynumber: 2.8 Consensus size: 37
22892 CTTTTTTGTC
22902 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
22939 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
** * *
22976 CTACTATTATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
23007 CCACAAGCAT
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:23694 original size:19 final size:17
Alignment explanation
Indices: 23655--23711 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
23645 ATATTATATG
23655 TATATTTA-T-TTTTCAT
1 TATATTTAGTATTTT-AT
*
23671 T-TATTTATTATTATTAT
1 TATATTTAGTATT-TTAT
23688 TAATATTTAGTATTTTAT
1 T-ATATTTAGTATTTTAT
23706 TATATT
1 TATATT
23712 ATACATACAT
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
15 6 0.17
16 2 0.06
17 10 0.29
18 7 0.20
19 10 0.29
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (17 bp):
TATATTTAGTATTTTAT
Found at i:23755 original size:25 final size:25
Alignment explanation
Indices: 23700--23777 Score: 83
Period size: 22 Copynumber: 3.3 Consensus size: 25
23690 ATATTTAGTA
* *
23700 TTTTATTATATTATACATAC-ATTT
1 TTTTATTATTTTATATATACTATTT
*
23724 TTATA-T-TTTTATATATA-TATTT
1 TTTTATTATTTTATATATACTATTT
*
23746 TTTTATTATTTTATTTATACTATTT
1 TTTTATTATTTTATATATACTATTT
*
23771 ATTTATT
1 TTTTATT
23778 TTCATTATAT
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
22 17 0.39
23 2 0.05
24 14 0.32
25 11 0.25
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (25 bp):
TTTTATTATTTTATATATACTATTT
Found at i:23757 original size:24 final size:24
Alignment explanation
Indices: 23678--23777 Score: 80
Period size: 24 Copynumber: 4.2 Consensus size: 24
23668 CATTTATTTA
* * *
23678 TTATTATTATTA-ATATTTAGTATT
1 TTATTATT-TTATATATATATTTTT
* * *
23702 TTATTATATTATACATACATTTTT
1 TTATTATTTTATATATATATTTTT
*
23726 ATA-T-TTTTATATATATATTTTT
1 TTATTATTTTATATATATATTTTT
* *
23748 TTATTATTTTATTTATACTATTTAT
1 TTATTATTTTATATATA-TATTTTT
23773 TTATT
1 TTATT
23778 TTCATTATAT
Statistics
Matches: 59, Mismatches: 13, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
22 17 0.29
23 5 0.08
24 26 0.44
25 11 0.19
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (24 bp):
TTATTATTTTATATATATATTTTT
Found at i:23764 original size:22 final size:22
Alignment explanation
Indices: 23659--23791 Score: 62
Period size: 22 Copynumber: 6.0 Consensus size: 22
23649 TATATGTATA
*
23659 TTTATT-TTTCATTTAT-TTATT
1 TTTATTATTTTATTTATATT-TT
* *
23680 ATTATTATTAATATTTAGTATTTT
1 TTTATTATT-TTATTTA-TATTTT
* * ** *
23704 ATTA-TATTATACATACATTTT
1 TTTATTATTTTATTTATATTTT
* *
23725 TATATT-TTTATATATATATTTT
1 TTTATTATTT-TATTTATATTTT
* *
23747 TTTATTATTTTATTTATA-CTA
1 TTTATTATTTTATTTATATTTT
23768 TTTATTTATTTTCA-TTATATTTT
1 TTTA-TTATTTT-ATTTATATTTT
23791 T
1 T
23792 AGTTTCTTTG
Statistics
Matches: 85, Mismatches: 17, Indels: 18
0.71 0.14 0.15
Matches are distributed among these distances:
21 19 0.22
22 42 0.49
23 15 0.18
24 7 0.08
25 2 0.02
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.67
Consensus pattern (22 bp):
TTTATTATTTTATTTATATTTT
Found at i:23787 original size:46 final size:45
Alignment explanation
Indices: 23700--23791 Score: 107
Period size: 46 Copynumber: 2.0 Consensus size: 45
23690 ATATTTAGTA
*
23700 TTTTATTATATTATACATACATTTTTATATTTTTATATATATATTT
1 TTTTATTATATTATACATACATTTTTATATTTTCATATATAT-TTT
* **
23746 TTTTATTATTTTATTTATACTATTTATT-TATTTTCAT-TATATTTT
1 TTTTATTATATTATACATAC-ATTT-TTATATTTTCATATATATTTT
23791 T
1 T
23792 AGTTTCTTTG
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
45 4 0.10
46 22 0.55
47 12 0.30
48 2 0.05
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.67
Consensus pattern (45 bp):
TTTTATTATATTATACATACATTTTTATATTTTCATATATATTTT
Found at i:23891 original size:11 final size:11
Alignment explanation
Indices: 23840--23905 Score: 53
Period size: 12 Copynumber: 5.6 Consensus size: 11
23830 AACACTTTAC
23840 CTTTTTTA-TT
1 CTTTTTTATTT
*
23850 CTTTTTGTATAT
1 CTTTTT-TATTT
* *
23862 ATATTTTATCTT
1 CTTTTTTAT-TT
23874 CATTTTTTTATTT
1 C--TTTTTTATTT
23887 CTTTTTTTATTT
1 C-TTTTTTATTT
23899 CTTTTTT
1 CTTTTTT
23906 TCATTTTTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
10 6 0.13
11 11 0.24
12 18 0.40
13 3 0.07
14 7 0.16
ACGTcount: A:0.14, C:0.09, G:0.02, T:0.76
Consensus pattern (11 bp):
CTTTTTTATTT
Found at i:23891 original size:12 final size:12
Alignment explanation
Indices: 23865--23915 Score: 68
Period size: 12 Copynumber: 4.1 Consensus size: 12
23855 TGTATATATA
23865 TTTTATCTTCATTT
1 TTTTAT-TTC-TTT
23879 TTTTATTTCTTT
1 TTTTATTTCTTT
23891 TTTTATTTCTTT
1 TTTTATTTCTTT
23903 TTTTCATTT-TTT
1 TTTT-ATTTCTTT
23915 T
1 T
23916 ATCCAATTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
12 23 0.64
13 7 0.19
14 6 0.17
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTTATTTCTTT
Found at i:23914 original size:33 final size:37
Alignment explanation
Indices: 23841--23917 Score: 101
Period size: 33 Copynumber: 2.2 Consensus size: 37
23831 ACACTTTACC
23841 TTTTTTA-TTCTTTTTGTATATATATTTTATCTTCAT
1 TTTTTTATTTCTTTTTGTATATATATTTTATCTTCAT
* *
23877 TTTTTTATTTCTTTTT-T-TATTTCTTTT-T-TTCAT
1 TTTTTTATTTCTTTTTGTATATATATTTTATCTTCAT
23910 TTTTTTAT
1 TTTTTTAT
23918 CCAATTATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
33 13 0.34
34 1 0.03
35 8 0.21
36 8 0.21
37 8 0.21
ACGTcount: A:0.14, C:0.08, G:0.01, T:0.77
Consensus pattern (37 bp):
TTTTTTATTTCTTTTTGTATATATATTTTATCTTCAT
Found at i:25228 original size:19 final size:20
Alignment explanation
Indices: 25204--25251 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
25194 AATGATTTTC
* * *
25204 TTTTGAAAGCTAAAATG-GA
1 TTTTGAAAACCAAAATGAAA
25223 TTTTGAAAACCAAAATGAAA
1 TTTTGAAAACCAAAATGAAA
25243 TTTTGAAAA
1 TTTTGAAAA
25252 GGGATTTAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.48, C:0.06, G:0.15, T:0.31
Consensus pattern (20 bp):
TTTTGAAAACCAAAATGAAA
Found at i:29241 original size:4 final size:4
Alignment explanation
Indices: 29232--29310 Score: 70
Period size: 4 Copynumber: 19.0 Consensus size: 4
29222 CCCGTTCAAT
* * **
29232 TAAA TAAA TAAA TAAA TAAT TCAA -AAA TAAA TAAA TTATT TGAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA -TAAA T-AAA TAAA
*
29281 TAAA TAAT TCAAA GTAAA TAAA TAAA TAAA
1 TAAA TAAA T-AAA -TAAA TAAA TAAA TAAA
29311 AATTACCTTC
Statistics
Matches: 60, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
3 2 0.03
4 48 0.80
5 9 0.15
6 1 0.02
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (4 bp):
TAAA
Found at i:29299 original size:22 final size:21
Alignment explanation
Indices: 29229--29309 Score: 86
Period size: 18 Copynumber: 4.1 Consensus size: 21
29219 ATACCCGTTC
29229 AATT-AAATAAATAAATAAAT
1 AATTCAAATAAATAAATAAAT
29249 AATTC-AA-AAATAAATAAAT
1 AATTCAAATAAATAAATAAAT
*
29268 TATT----TGAAATAAATAAAT
1 AATTCAAAT-AAATAAATAAAT
29286 AATTCAAAGTAAATAAATAAAT
1 AATTCAAA-TAAATAAATAAAT
29308 AA
1 AA
29310 AAATTACCTT
Statistics
Matches: 51, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
18 15 0.29
19 15 0.29
20 6 0.12
22 14 0.27
23 1 0.02
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (21 bp):
AATTCAAATAAATAAATAAAT
Found at i:31905 original size:12 final size:13
Alignment explanation
Indices: 31888--31921 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
31878 TGCATATATA
31888 ATTTAAGT-ATTT
1 ATTTAAGTGATTT
31900 ATTTAAGTGATTT
1 ATTTAAGTGATTT
*
31913 AATTAAGTG
1 ATTTAAGTG
31922 CGTCTAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (13 bp):
ATTTAAGTGATTT
Found at i:32223 original size:2 final size:2
Alignment explanation
Indices: 32218--32259 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
32208 CCTTGTGTGC
32218 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
32260 ATACCTCAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:33100 original size:20 final size:20
Alignment explanation
Indices: 33056--33107 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
33046 TGATTCAATT
* *
33056 AGTATCAATACCGAAGGGTG
1 AGTATCGATACCGAAGGGAG
33076 AGTATCGATACCGAAGGGA-
1 AGTATCGATACCGAAGGGAG
33095 AGGTATCGATACC
1 A-GTATCGATACC
33108 ATTTCAAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 1 0.03
20 28 0.97
ACGTcount: A:0.35, C:0.17, G:0.29, T:0.19
Consensus pattern (20 bp):
AGTATCGATACCGAAGGGAG
Found at i:34272 original size:68 final size:68
Alignment explanation
Indices: 33795--34254 Score: 731
Period size: 68 Copynumber: 6.8 Consensus size: 68
33785 AAAGATTAAT
* *
33795 AGGCCTAACTGTGGATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTACCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
33860 TTG
66 TTG
*
33863 AGGCCTAACTGTGCATTTGACAGAAAGGTGTTAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
33928 TTG
66 TTG
* *
33931 AGGCCTAACTGTGTATTTGACATAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
33996 TTG
66 TTG
* **
33999 AGGCCTAACTGTGCATTTGACAGAAACGTGTCAATTATGTTAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
34064 TTG
66 TTG
* *
34067 AGGCCTAACTGTGTATTTGACAGAAAGGTGTGAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
34132 TTG
66 TTG
* * * * * *
34135 AGGCCTAACTGTGCATTTGATAGAAAAGTGTCAATTATGCTAGATCGATGAAAGGTTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
34200 TTG
66 TTG
* * * * *
34203 AGGCCTAGCTGTGCATTTGAAAAAAAGGTGTCAATTATGCCAATTAAATGAA
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
34255 CGATTAAATA
Statistics
Matches: 359, Mismatches: 33, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
68 359 1.00
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (68 bp):
AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
TTG
Found at i:34383 original size:29 final size:29
Alignment explanation
Indices: 34341--34436 Score: 147
Period size: 29 Copynumber: 3.3 Consensus size: 29
34331 ATGACGGTAC
* *
34341 TGAGTAAAAGATGAAAAGTCAAACATTGT
1 TGAGTAAAAGATGAACAGTTAAACATTGT
* *
34370 TGAGTAAAAGATGAACAGTTAAACACTAT
1 TGAGTAAAAGATGAACAGTTAAACATTGT
*
34399 TGAGTAAAAGATGAACGGTTAAACATTGT
1 TGAGTAAAAGATGAACAGTTAAACATTGT
34428 TGAGTAAAA
1 TGAGTAAAA
34437 TAATAATGGA
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 60 1.00
ACGTcount: A:0.47, C:0.07, G:0.21, T:0.25
Consensus pattern (29 bp):
TGAGTAAAAGATGAACAGTTAAACATTGT
Found at i:34931 original size:17 final size:17
Alignment explanation
Indices: 34909--34942 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
34899 GCACTATGTG
34909 TGCGAACTAAGAAATTC
1 TGCGAACTAAGAAATTC
34926 TGCGAACTAAGAAATTC
1 TGCGAACTAAGAAATTC
34943 ATACTAAGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.24
Consensus pattern (17 bp):
TGCGAACTAAGAAATTC
Found at i:35302 original size:68 final size:68
Alignment explanation
Indices: 35185--35610 Score: 575
Period size: 68 Copynumber: 6.3 Consensus size: 68
35175 AGATTAATAT
** * *
35185 GCCTAACTGTTTATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGTCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
35250 GAG
66 GAG
* * * *
35253 GCCTAACTATGCATTTGACAGAAAGGTGCCAATTATGCCATTTATATGAAAGGCTAAGTGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
35318 GAG
66 GAG
* * * *
35321 GCCTAATTGTCCATTTGACATAAAGGTGGCAATTATGCCAGTTAGATGAAATGG-TAAGTGCCTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAA-GGCTAAGTGCCTT
35385 TGAG
65 TGAG
* * * * * *
35389 GCCTAAATGTGCATTTGACAGAAAGTTTTCAATTATTCCATTTAGATGAAAGGCTAAGTGCTTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
*
35454 AAG
66 GAG
* * * * *
35457 GCCTAACTGTGCATTTGACAGAAAGTTTTCAATTATGTCATTTAGATGAAAGGCTAGGTGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
35522 GAG
66 GAG
* * *
35525 GCCTAACTATGCATTTGACAGAAAGGTGTCAATTATACCAGTTAGATGAAATGCTAAGTGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
* *
35590 TAA
66 GAG
35593 GCCTAACTGTGCATTTGA
1 GCCTAACTGTGCATTTGA
35611 ATTATGCCAG
Statistics
Matches: 314, Mismatches: 42, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
67 2 0.01
68 310 0.99
69 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.32
Consensus pattern (68 bp):
GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
GAG
Found at i:35430 original size:136 final size:136
Alignment explanation
Indices: 35185--35765 Score: 733
Period size: 136 Copynumber: 4.4 Consensus size: 136
35175 AGATTAATAT
** * *
35185 GCCTAACTGTTTATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGTCTTT
1 GCCTAACTGTCCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
* * *
35250 GAGGCCTAACTATGCATTTGACAGAAAGGTGCCAATTATGCCATTTATATGAAAGGCTAAGTGCC
66 GAGGCCTAACTATGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCC
35315 TTTGAG
131 TTTGAG
* * *
35321 GCCTAATTGTCCATTTGACATAAAGGTGGCAATTATGCCAGTTAGATGAAATGG-TAAGTGCCTT
1 GCCTAACTGTCCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAA-GGCTAAGTGCCTT
* * * * * *
35385 TGAGGCCTAAATGTGCATTTGACAGAAAGTTTTCAATTATTCCATTTAGATGAAAGGCTAAGTGC
65 TGAGGCCTAACTATGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGC
* *
35450 TTTTAAG
130 CTTTGAG
* * * * * *
35457 GCCTAACTGTGCATTTGACAGAAAGTTTTCAATTATGTCATTTAGATGAAAGGCTAGGTGCCTTT
1 GCCTAACTGTCCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
* *
35522 GAGGCCTAACTATGCATTTGACAGAAAGGTGTCAATTATACCAGTTAGATGAAATGCTAAGTGCC
66 GAGGCCTAACTATGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCC
* *
35587 TTTTAA
131 TTTGAG
*
35593 GCCTAACTGTGCA-TT----------TG--AATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
1 GCCTAACTGTCCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
*
35645 GAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCC
66 GAGGCCTAACTATGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCC
35710 TTTGAG
131 TTTGAG
* ** *
35716 GCCTAACTGTGCAATAGGA-AGAAAGGTGTCAATTATGCTAGTTAGATGAA
1 GCCTAACTGT-CCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
35766 CTGTTAAATA
Statistics
Matches: 381, Mismatches: 49, Indels: 30
0.83 0.11 0.07
Matches are distributed among these distances:
123 108 0.28
124 1 0.00
125 1 0.00
134 2 0.01
135 4 0.01
136 263 0.69
137 2 0.01
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (136 bp):
GCCTAACTGTCCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
GAGGCCTAACTATGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCC
TTTGAG
Found at i:35552 original size:204 final size:203
Alignment explanation
Indices: 35197--35765 Score: 770
Period size: 204 Copynumber: 2.9 Consensus size: 203
35187 CTAACTGTTT
*
35197 ATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTG-TCTTTGAGGCCTAACT
1 ATTTGACAGAAA-GTTTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCT-TTTGAGGCCTAACT
* * *
35261 ATGCATTTGACAGAAAGGTGCCAATTATGCCATTTATATGAAAGGCTAAGTGCCTTTGAGGCCTA
64 GTGCATTTGACAGAAAGGTGTCAATTATGCCATTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTA
* * * * * *
35326 ATTGTCCATTTGACATAAAGGTGGCAATTATGCCAGTTAGATGAAATGGTAAGTGCCTTTGAGGC
129 ACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAATGCTAAGTGCCTTTGAAGC
35391 CTAAATGTGC
194 CTAAATGTGC
* * *
35401 ATTTGACAGAAAGTTTTCAATTATTCCATTTAGATGAAAGGCTAAGTGCTTTTAAGGCCTAACTG
1 ATTTGACAGAAAG-TTTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCTTTTGAGGCCTAACTG
* * * *
35466 TGCATTTGACAGAAAGTTTTCAATTATGTCATTTAGATGAAAGGCTAGGTGCCTTTGAGGCCTAA
65 TGCATTTGACAGAAAGGTGTCAATTATGCCATTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAA
* * *
35531 CTATGCATTTGACAGAAAGGTGTCAATTATACCAGTTAGATGAAATGCTAAGTGCCTTTTAAGCC
130 CTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAATGCTAAGTGCCTTTGAAGCC
*
35596 TAACTGTGC
195 TAAATGTGC
*
35605 ATTT--------G----AATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGT
1 ATTTGACAGAAAGTTTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCTTTTGAGGCCTAACTGT
*
35658 GCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAAC
66 GCATTTGACAGAAAGGTGTCAATTATGCCATTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAAC
** *
35723 TGTGCAATAGGA-AGAAAGGTGTCAATTATGCTAGTTAGATGAA
131 TGTGC-ATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
35766 CTGTTAAATA
Statistics
Matches: 327, Mismatches: 35, Indels: 19
0.86 0.09 0.05
Matches are distributed among these distances:
191 137 0.42
192 4 0.01
196 1 0.00
203 1 0.00
204 183 0.56
205 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (203 bp):
ATTTGACAGAAAGTTTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCTTTTGAGGCCTAACTGT
GCATTTGACAGAAAGGTGTCAATTATGCCATTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAAC
TGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAATGCTAAGTGCCTTTGAAGCCT
AAATGTGC
Found at i:35639 original size:55 final size:55
Alignment explanation
Indices: 35555--35665 Score: 186
Period size: 55 Copynumber: 2.0 Consensus size: 55
35545 GAAAGGTGTC
* *
35555 AATTATACCAGTTAGATGAAATGCTAAGTGCCTTTTAAGCCTAACTGTGCATTTG
1 AATTATACCAGTTAGATGAAAGGCTAAGTGCCTTTGAAGCCTAACTGTGCATTTG
* *
35610 AATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGCATTTG
1 AATTATACCAGTTAGATGAAAGGCTAAGTGCCTTTGAAGCCTAACTGTGCATTTG
35665 A
1 A
35666 CAGAAAGGTG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (55 bp):
AATTATACCAGTTAGATGAAAGGCTAAGTGCCTTTGAAGCCTAACTGTGCATTTG
Found at i:35706 original size:123 final size:123
Alignment explanation
Indices: 35487--35728 Score: 412
Period size: 123 Copynumber: 2.0 Consensus size: 123
35477 GAAAGTTTTC
* * *
35487 AATTATGTCATTTAGATGAAAGGCTAGGTGCCTTTGAGGCCTAACTATGCATTTGACAGAAAGGT
1 AATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTATGCATTTGACAGAAAGGT
* *
35552 GTCAATTATACCAGTTAGATGAAATGCTAAGTGCCTTTTAAGCCTAACTGTGCATTTG
66 GTCAATTATACCAGTTAGATGAAAGGCTAAGTGCCTTTGAAGCCTAACTGTGCATTTG
*
35610 AATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGCATTTGACAGAAAGGT
1 AATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTATGCATTTGACAGAAAGGT
* *
35675 GTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGCA
66 GTCAATTATACCAGTTAGATGAAAGGCTAAGTGCCTTTGAAGCCTAACTGTGCA
35729 ATAGGAAGAA
Statistics
Matches: 111, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
123 111 1.00
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (123 bp):
AATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTATGCATTTGACAGAAAGGT
GTCAATTATACCAGTTAGATGAAAGGCTAAGTGCCTTTGAAGCCTAACTGTGCATTTG
Found at i:35761 original size:191 final size:191
Alignment explanation
Indices: 35419--35765 Score: 552
Period size: 191 Copynumber: 1.8 Consensus size: 191
35409 GAAAGTTTTC
* * * *
35419 AATTATTCCATTTAGATGAAAGGCTAAGTGCTTTTAAGGCCTAACTGTGCATTTGACAGAAAGTT
1 AATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTAAGGCCTAACTGTGCATTTGACAGAAAGGT
* * * * **
35484 TTCAATTATGTCATTTAGATGAAAGGCTAGGTGCCTTTGAGGCCTAACTATGCATTTGACAGAAA
66 GTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTATGCATAGGACAGAAA
35549 GGTGTCAATTATACCAGTTAGATGAAATGCTAAGTGCCTTTTAAGCCTAACTGTGCATTTG
131 GGTGTCAATTATACCAGTTAGATGAAATGCTAAGTGCCTTTTAAGCCTAACTGTGCATTTG
*
35610 AATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGCATTTGACAGAAAGGT
1 AATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTAAGGCCTAACTGTGCATTTGACAGAAAGGT
*
35675 GTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGCAATAGGA-AGAA
66 GTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTATGC-ATAGGACAGAA
* *
35739 AGGTGTCAATTATGCTAGTTAGATGAA
130 AGGTGTCAATTATACCAGTTAGATGAA
35766 CTGTTAAATA
Statistics
Matches: 141, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
191 137 0.97
192 4 0.03
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (191 bp):
AATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTAAGGCCTAACTGTGCATTTGACAGAAAGGT
GTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTATGCATAGGACAGAAA
GGTGTCAATTATACCAGTTAGATGAAATGCTAAGTGCCTTTTAAGCCTAACTGTGCATTTG
Found at i:35783 original size:68 final size:68
Alignment explanation
Indices: 35610--35765 Score: 269
Period size: 68 Copynumber: 2.3 Consensus size: 68
35600 TGTGCATTTG
**
35610 AATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGCATTTGACAGAAAGGT
1 AATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGCATAGGACAGAAAGGT
35675 GTC
66 GTC
35678 AATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGCAATAGGA-AGAAAGG
1 AATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGC-ATAGGACAGAAAGG
35742 TGTC
65 TGTC
*
35746 AATTATGCTAGTTAGATGAA
1 AATTATGCCAGTTAGATGAA
35766 CTGTTAAATA
Statistics
Matches: 84, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
68 80 0.95
69 4 0.05
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (68 bp):
AATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGCATAGGACAGAAAGGT
GTC
Found at i:35853 original size:81 final size:81
Alignment explanation
Indices: 35717--35870 Score: 238
Period size: 81 Copynumber: 1.9 Consensus size: 81
35707 GCCTTTGAGG
* * *
35717 CCTAACTGTGCAATAGGAAGAAAGGTGTCAATTATGCTAGTTAGATGAACTGTTAAATACCGTTG
1 CCTAACTGTGCAATAGGAAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAACACCGTTG
35782 AGTAAAAGGATAATGA
66 AGTAAAAGGATAATGA
* * *
35798 CCTAATTGTGCGAAT-GGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAACACTGTT
1 CCTAACTGTGC-AATAGGAAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAACACCGTT
35862 GAGTAAAAG
65 GAGTAAAAG
35871 ATGAAAGGTC
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
81 63 0.95
82 3 0.05
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.27
Consensus pattern (81 bp):
CCTAACTGTGCAATAGGAAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAACACCGTTG
AGTAAAAGGATAATGA
Found at i:35884 original size:29 final size:29
Alignment explanation
Indices: 35840--35986 Score: 208
Period size: 29 Copynumber: 5.1 Consensus size: 29
35830 TATGCCAGTT
*
35840 AGATGAACGGTTAAACACTGTTGAGTAAA
1 AGATGAAAGGTTAAACACTGTTGAGTAAA
*
35869 AGATGAAAGGTCAAACACTGTTGAGTAAA
1 AGATGAAAGGTTAAACACTGTTGAGTAAA
* **
35898 GGATGAACTGTTAAACACTGTTGAGTAAA
1 AGATGAAAGGTTAAACACTGTTGAGTAAA
*
35927 AGATGAAAGG-TAAACACTATTGAGTAAA
1 AGATGAAAGGTTAAACACTGTTGAGTAAA
*
35955 AGATGAACA-GTTAAACATTGTTGAGTAAA
1 AGATGAA-AGGTTAAACACTGTTGAGTAAA
35984 AGA
1 AGA
35987 ATAATGGACT
Statistics
Matches: 104, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
28 25 0.24
29 79 0.76
ACGTcount: A:0.44, C:0.09, G:0.23, T:0.24
Consensus pattern (29 bp):
AGATGAAAGGTTAAACACTGTTGAGTAAA
Found at i:35969 original size:57 final size:58
Alignment explanation
Indices: 35840--35986 Score: 242
Period size: 57 Copynumber: 2.6 Consensus size: 58
35830 TATGCCAGTT
* *
35840 AGATGAACGGTTAAACACTGTTGAGTAAAAGATGAAAGGTCAAACACTGTTGAGTAAA
1 AGATGAACAGTTAAACACTGTTGAGTAAAAGATGAAAGGTCAAACACTATTGAGTAAA
* *
35898 GGATGAACTGTTAAACACTGTTGAGTAAAAGATGAAAGGT-AAACACTATTGAGTAAA
1 AGATGAACAGTTAAACACTGTTGAGTAAAAGATGAAAGGTCAAACACTATTGAGTAAA
*
35955 AGATGAACAGTTAAACATTGTTGAGTAAAAGA
1 AGATGAACAGTTAAACACTGTTGAGTAAAAGA
35987 ATAATGGACT
Statistics
Matches: 83, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
57 45 0.54
58 38 0.46
ACGTcount: A:0.44, C:0.09, G:0.23, T:0.24
Consensus pattern (58 bp):
AGATGAACAGTTAAACACTGTTGAGTAAAAGATGAAAGGTCAAACACTATTGAGTAAA
Found at i:44309 original size:108 final size:108
Alignment explanation
Indices: 44115--44377 Score: 391
Period size: 108 Copynumber: 2.4 Consensus size: 108
44105 TAATGGGGCT
44115 TTAGAAATCTGACGATAACAAAATAGGTTAATTACTTATTTTGTTATCAATATTATCAACATATT
1 TTAGAAATCTGACGATAACAAAATAGGTTAATTACTTATTTTGTTATCAATATTATCAACATATT
* *
44180 AGGCATCGCCTAAAATATTACCAAAATTTAAGTTGATATGGCC
66 AGGCAGCGCCTAAAATATTACCAAAATTTAAGCTGATATGGCC
* *
44223 TTAGAAATCTGACGATAACAAAATAGGTTAATTACTTATTTTGTTATTAATATTATCACCATATT
1 TTAGAAATCTGACGATAACAAAATAGGTTAATTACTTATTTTGTTATCAATATTATCAACATATT
* * * * *
44288 AGGTAGCGCCTAAAATGTTACCAAAGTTTAAGCTGGTGTGGCC
66 AGGCAGCGCCTAAAATATTACCAAAATTTAAGCTGATATGGCC
* ** * * *
44331 TTCGAAATCCCACGACAACAAAATAGATTAATTTCTTATTTTGTTAT
1 TTAGAAATCTGACGATAACAAAATAGGTTAATTACTTATTTTGTTAT
44378 ATATATATAT
Statistics
Matches: 140, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
108 140 1.00
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.36
Consensus pattern (108 bp):
TTAGAAATCTGACGATAACAAAATAGGTTAATTACTTATTTTGTTATCAATATTATCAACATATT
AGGCAGCGCCTAAAATATTACCAAAATTTAAGCTGATATGGCC
Found at i:51339 original size:914 final size:909
Alignment explanation
Indices: 49562--51378 Score: 2668
Period size: 914 Copynumber: 2.0 Consensus size: 909
49552 GATAGCTTTA
*
49562 TGTTTAGTAAATCGATTGACGGAATCGGCCAAGAGGGGAGTGAACTGGCAATAAAAATTTTGGTG
1 TGTTGAGTAAATCGATTGACGGAATCGGCCAAGAGGGGAGTGAACTGGCAATAAAAATTTTGGTG
*
49627 GAAGCTTTTGCAGAAAATTGAAAGTAATTGCACAACGATTTAGAGTGGTTCGACTTTCTCAACCA
66 GAAGCTTTTGCAGAAAATTGAAAGTAATTACACAACGATTTAGAGTGGTTCGACTTTCTCAACCA
49692 AAGTCTACATCCACTACCTTAGCTATCCACACTAAGGATTTTCCAACAAATTCACTAATTTGTTC
131 AAGTCTACATCCACTACCTTAGCTATCCACACTAAGGATTTTCCAACAAATTCACTAATTTGTTC
** *
49757 TTTCTTTTGAGGCCAAAGAGATAACCTTACAATTCTCTCAAGAATATACCCCAATTCTTGAAAAC
196 TTTCTTTTGAGGCCAAAGAGATAACCTTACAACACCCTCAAGAATATACCCCAATTCTTGAAAAC
* * *
49822 ACTCTTTTCTCAAAGAGAATATTACAAATTTGCAAACTTACAAGAAAAACCTCACAAGGCAAATA
261 ACTCTTTTCCCAAAGAGAAGATTACAAATTTGCAAACTTACAAGAAAAACCTCACAAGGCAAAGA
*
49887 TGTTTGCACAATTCTAGAACAAAGAAAAAACACTCAAGAATAAATACAATTGAGCACAATAAGTG
326 TGTTTGCACAATTCTAGAACAAAGAAAAAACACTCAAGAATAAATACAAATGAGCACAATAAGTG
* * *
49952 TTATTGAAAGCAAAATGAATATTGAATGAAAAATAGGCTTGAAAATGCTCAAACTTGAGGTTTGA
391 TTATTGAAAGCAAAATGAATATTGAAAGAAAAATAGGCTTGAAAATGCACAAACTTGAGATTTGA
* * * *
50017 TGCTTTCTCTCTTGATTCTAGTTGCTTGATGTTTCTTGTTATTGATCAATGGCTTCTAAGCTTGT
456 CGCTTTCTCTCTTGATTCTA-CTGCTTGA-GTTTCTTG-T-TTGATCAAAGGCTTCTAAACTTGT
* * * *
50082 TTAAATACACCTTGAATCACTTCTGAACATTGGGGATCATTAATGAAGTTATTGGAGTCGTTTAA
517 TTAAATACACCTTGAATCAATTCTGAACATTGGGGATCATTAATGAAGTCATT-GAGCCATTTAA
*** *
50147 GTGTGAAAACAATTAATATTTCTGCTTGCAGCGTGGGGGGGAATCGGTACCCCCTCATGGGGAAT
581 GTGTGAAAACAATTAATAAAACAGCTTGCAGCGTGGGGGGGAATCGGTACCCCCTCATGGGGAAT
*
50212 CGGTTCCCTAAGCGTAAAATTCAAATATTCGACCGTTGAACAGTGGGGGGAATCAATACCCCCTG
646 CGGTTCCCTAAGCGTAAAATTCAAATATTCGACCGTTGAACAGAGGGGGGAATCAATACCCCCTG
* *
50277 GGGGAATCGGTTCCCTCCGAGCATACTGGAATTTCTCGGAGCAAAACCATTCAGGGGGAATTGGT
711 GGGGAATCGGTTCCCTCCGAGCATACTGGAATATCTCGGAGCAAAACCATTCAGGGGGAATCGGT
* *
50342 ACCCCCTTGGGGGGCAATCGGTTCCCTCTAGACAAACTATAATTTTTGGCTTTGAAACGGTTTGA
776 ACCCCCTTGGGGGGCAATCGGTTCCCTCTAGACAAACTAGAATTTTTGGCTTTGAAACGGTTCGA
50407 AATACTTTGTAAAATTGTTTTGAAATTATTTTAAGATTAAAACTTAATTTTAAACTTTAGTAAGG
841 AATACTTTGTAAAATTGTTTTGAAATTATTTTAAGATTAAAACTTAATTTTAAACTTTAGTAAGG
50472 ATTT
906 ATTT
* * * *
50476 TGTTGAGTTAATCGATTGACGGAATTGGCCAAGAGGGGGGTGAATTGGCAATTAAAAA-TTTGGT
1 TGTTGAGTAAATCGATTGACGGAATCGGCCAAGAGGGGAGTGAACTGGCAA-TAAAAATTTTGGT
* *
50540 GGAAGCTTTTGCAGAAAATTGAAAGTAATTACACAGCGATTTAGAGTGGTTCGACTTTCTCAATC
65 GGAAGCTTTTGCAGAAAATTGAAAGTAATTACACAACGATTTAGAGTGGTTCGACTTTCTCAACC
* *
50605 AAAGTCTACGTCCACTACCTTAGCTATCCACACTAAGGATTTTCCAACAAATTCATTAATTTGTT
130 AAAGTCTACATCCACTACCTTAGCTATCCACACTAAGGATTTTCCAACAAATTCACTAATTTGTT
* *
50670 CTTTCTTTTGAGGCCAAAGAGATAACCTTACAACACCCTCAAGAATATACCTCAATTCTTGAGAA
195 CTTTCTTTTGAGGCCAAAGAGATAACCTTACAACACCCTCAAGAATATACCCCAATTCTTGAAAA
* *
50735 CACTC-TTTCCCAAAGAGAAGATTACAAATTTGCAAACTTACAAGGAAAACCTCACAAGG-TAAG
260 CACTCTTTTCCCAAAGAGAAGATTACAAATTTGCAAACTTACAAGAAAAACCTCACAAGGCAAAG
* *
50798 ATGTTTGCACAATTCTAGAA-TAAGAAAAGAACACTCAA-AGATAATTACAAATGAGCACAA-AT
325 ATGTTTGCACAATTCTAGAACAAAGAAAA-AACACTCAAGA-ATAAATACAAATGAGCACAATA-
* * * * ** *
50860 GGTGTTCTTGAAAGCAAAATGAATATTGAAAGGAAAATTGGCTTG-ATTTGCACAAACTTGATAT
387 AGTGTTATTGAAAGCAAAATGAATATTGAAAGAAAAATAGGCTTGAAAATGCACAAACTTGAGAT
50924 TTGACGCTTTCTCTCTTG-TT-T-CT-CTATGA-TTTCTTG-TTGATCAAAGGCTTC-AGAACTT
452 TTGACGCTTTCTCTCTTGATTCTACTGCT-TGAGTTTCTTGTTTGATCAAAGGCTTCTA-AACTT
* * *
50982 GTTTAAATACACCTTGAATCAATTCTGAACGTTGGGGATGATTAGTGAAGATCATAT-AGCCATT
515 GTTTAAATACACCTTGAATCAATTCTGAACATTGGGGATCATTAATGAAG-TCAT-TGAGCCATT
* * **
51046 TTAGTGTGAAAACAATTAATAAAACAGTTTGGGGCGT-GGGGGGAATCGGTACCCCCT-ATGGGG
578 TAAGTGTGAAAACAATTAATAAAACAGCTTGCAGCGTGGGGGGGAATCGGTACCCCCTCATGGGG
* **
51109 AATCGGTTCCCTAAGTGTAAAATTCAAATATTTCGACCGTTGAACA-AGGGGGGAATCGGTACCC
643 AATCGGTTCCCTAAGCGTAAAATTCAAATA-TTCGACCGTTGAACAGAGGGGGGAATCAATA-CC
*
51173 CCCATGGGGGAATCGGTTCCCTCCGAGCATTCTGGAA-ATCTCGGAGCCAAAA-CATTCAGGGGG
706 CCC-TGGGGGAATCGGTTCCCTCCGAGCATACTGGAATATCTCGGAG-CAAAACCATTCA-GGGG
* * ** *
51236 GAATCGGTACCCCCTTGGGGGGGGAATCGGTTCCTTCTA-AGCAATTTGGAATTTTTGGCTTTGA
768 GAATCGGTACCCCCTT-GGGGGGCAATCGGTTCCCTCTAGA-CAAACTAGAATTTTTGGCTTTGA
* * * *
51300 AATGGTTCGAAATACTTTGTAAAATTATTTTGAAATTGTTTTAAGATTAAAACTTAATTTTACAC
831 AACGGTTCGAAATACTTTGTAAAATTGTTTTGAAATTATTTTAAGATTAAAACTTAATTTTAAAC
51365 TTTGAGTAAGGATT
896 TTT-AGTAAGGATT
51379 AAAAATGATC
Statistics
Matches: 817, Mismatches: 70, Indels: 42
0.88 0.08 0.05
Matches are distributed among these distances:
900 47 0.06
901 55 0.07
902 155 0.19
903 105 0.13
904 11 0.01
905 7 0.01
906 2 0.00
907 4 0.00
909 1 0.00
910 2 0.00
911 40 0.05
912 89 0.11
913 51 0.06
914 242 0.30
915 6 0.01
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (909 bp):
TGTTGAGTAAATCGATTGACGGAATCGGCCAAGAGGGGAGTGAACTGGCAATAAAAATTTTGGTG
GAAGCTTTTGCAGAAAATTGAAAGTAATTACACAACGATTTAGAGTGGTTCGACTTTCTCAACCA
AAGTCTACATCCACTACCTTAGCTATCCACACTAAGGATTTTCCAACAAATTCACTAATTTGTTC
TTTCTTTTGAGGCCAAAGAGATAACCTTACAACACCCTCAAGAATATACCCCAATTCTTGAAAAC
ACTCTTTTCCCAAAGAGAAGATTACAAATTTGCAAACTTACAAGAAAAACCTCACAAGGCAAAGA
TGTTTGCACAATTCTAGAACAAAGAAAAAACACTCAAGAATAAATACAAATGAGCACAATAAGTG
TTATTGAAAGCAAAATGAATATTGAAAGAAAAATAGGCTTGAAAATGCACAAACTTGAGATTTGA
CGCTTTCTCTCTTGATTCTACTGCTTGAGTTTCTTGTTTGATCAAAGGCTTCTAAACTTGTTTAA
ATACACCTTGAATCAATTCTGAACATTGGGGATCATTAATGAAGTCATTGAGCCATTTAAGTGTG
AAAACAATTAATAAAACAGCTTGCAGCGTGGGGGGGAATCGGTACCCCCTCATGGGGAATCGGTT
CCCTAAGCGTAAAATTCAAATATTCGACCGTTGAACAGAGGGGGGAATCAATACCCCCTGGGGGA
ATCGGTTCCCTCCGAGCATACTGGAATATCTCGGAGCAAAACCATTCAGGGGGAATCGGTACCCC
CTTGGGGGGCAATCGGTTCCCTCTAGACAAACTAGAATTTTTGGCTTTGAAACGGTTCGAAATAC
TTTGTAAAATTGTTTTGAAATTATTTTAAGATTAAAACTTAATTTTAAACTTTAGTAAGGATTT
Found at i:53342 original size:20 final size:20
Alignment explanation
Indices: 53313--53350 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
53303 CCCCTTCAAA
*
53313 GGGGGAATCGGTTCCCTCAT
1 GGGGGAATCGATTCCCTCAT
*
53333 GGGGGGATCGATTCCCTC
1 GGGGGAATCGATTCCCTC
53351 TGCACCAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.26, G:0.37, T:0.24
Consensus pattern (20 bp):
GGGGGAATCGATTCCCTCAT
Done.