Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01013105.1 Kokia drynarioides strain JFW-HI SEQ_128123, 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: 152853
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:4776 original size:31 final size:31
Alignment explanation
Indices: 4741--4802 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
4731 TAAAAATTAA
* *
4741 TTATAGAAGGACATTTCATAATTTTCTAATT
1 TTATAGAAGAACATTTCATAATTTCCTAATT
* *
4772 TTATAGAATAACATTTTATAATTTCCTAATT
1 TTATAGAAGAACATTTCATAATTTCCTAATT
4803 CAATTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.37, C:0.10, G:0.06, T:0.47
Consensus pattern (31 bp):
TTATAGAAGAACATTTCATAATTTCCTAATT
Found at i:11510 original size:24 final size:24
Alignment explanation
Indices: 11482--11533 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
11472 ATTTATTACG
11482 TTTATGCACGCCAGCTTGCACACA
1 TTTATGCACGCCAGCTTGCACACA
** * *
11506 TTTATGCTTGTCAGCTTGCACACG
1 TTTATGCACGCCAGCTTGCACACA
11530 TTTA
1 TTTA
11534 CGCTTGCCAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.21, C:0.27, G:0.17, T:0.35
Consensus pattern (24 bp):
TTTATGCACGCCAGCTTGCACACA
Found at i:11538 original size:24 final size:24
Alignment explanation
Indices: 11493--11688 Score: 160
Period size: 24 Copynumber: 8.1 Consensus size: 24
11483 TTATGCACGC
* *
11493 CAGCTTGCACACATTTATGCTTGT
1 CAGCTTGCACACGTTTACGCTTGT
*
11517 CAGCTTGCACACGTTTACGCTTGC
1 CAGCTTGCACACGTTTACGCTTGT
*
11541 CAG-TGTGTACACGTTTACGCTTGT
1 CAGCT-TGCACACGTTTACGCTTGT
* * * *
11565 CAGCTTGCACAAGTTTATGATCGT
1 CAGCTTGCACACGTTTACGCTTGT
* * ** * *
11589 CAGTTTATTCATGCGTTTAAGCTTAT
1 CAG-CT-TGCACACGTTTACGCTTGT
*
11615 TAGCTTGCACACGTTTACGCTTGT
1 CAGCTTGCACACGTTTACGCTTGT
* * *
11639 CAGCTTGCACATGTTTACACTCGT
1 CAGCTTGCACACGTTTACGCTTGT
* * * *
11663 CGGGTTGCACACGTTTATGCTCGT
1 CAGCTTGCACACGTTTACGCTTGT
11687 CA
1 CA
11689 ACTTATTTAT
Statistics
Matches: 132, Mismatches: 36, Indels: 8
0.75 0.20 0.05
Matches are distributed among these distances:
23 1 0.01
24 115 0.87
25 3 0.02
26 13 0.10
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.36
Consensus pattern (24 bp):
CAGCTTGCACACGTTTACGCTTGT
Found at i:11687 original size:98 final size:98
Alignment explanation
Indices: 11504--11740 Score: 269
Period size: 98 Copynumber: 2.4 Consensus size: 98
11494 AGCTTGCACA
* * * * * *
11504 CATTTATGCTTGTCAGCTTGCACACGTTTACGCTTGCCAGTGTGTACACGTTTACGCTTGTCAGC
1 CATTTAAGCTTATCAGCTTGCACACGTTTACGCTTGTCAGTGTGCACACGTTTACACTCGTCAGC
**
11569 TTGCACAAGTTTATGATCGTCAGTTTATTCATG
66 TTGCACAAGTTTATGATCGTCAACTTATTCATG
* * * *
11602 CGTTTAAGCTTATTAGCTTGCACACGTTTACGCTTGTCAGCT-TGCACATGTTTACACTCGTCGG
1 CATTTAAGCTTATCAGCTTGCACACGTTTACGCTTGTCAG-TGTGCACACGTTTACACTCGTCAG
* * * *
11666 GTTGCACACGTTTATGCTCGTCAACTTATTTATG
65 CTTGCACAAGTTTATGATCGTCAACTTATTCATG
** * * *
11700 CATTTGTGCTTGTCAACTTGCACACGTTTACGCTCGTCAGT
1 CATTTAAGCTTATCAGCTTGCACACGTTTACGCTTGTCAGT
11741 TTATTTATGA
Statistics
Matches: 115, Mismatches: 23, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
97 1 0.01
98 113 0.98
99 1 0.01
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.38
Consensus pattern (98 bp):
CATTTAAGCTTATCAGCTTGCACACGTTTACGCTTGTCAGTGTGCACACGTTTACACTCGTCAGC
TTGCACAAGTTTATGATCGTCAACTTATTCATG
Found at i:14363 original size:41 final size:42
Alignment explanation
Indices: 14318--14435 Score: 134
Period size: 42 Copynumber: 2.8 Consensus size: 42
14308 ATGACTCGAA
* * * *
14318 ATGAGCATGAAGATAT-ATTTAAGGAAGACTCATGTCTTAGG
1 ATGAGAATGAAGATATGATTAAAGAAAGACTCATGTCTCAGG
* * *
14359 ATGAGAATG-AGAATATGATTAAAGAAAAACTCATGTGTCGGG
1 ATGAGAATGAAG-ATATGATTAAAGAAAGACTCATGTCTCAGG
14401 ATGAGAATGATA-ATATGATTAAAGAAAGACTCATG
1 ATGAGAATGA-AGATATGATTAAAGAAAGACTCATG
14436 AGTCGGAATG
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
40 2 0.03
41 12 0.18
42 50 0.77
44 1 0.02
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.26
Consensus pattern (42 bp):
ATGAGAATGAAGATATGATTAAAGAAAGACTCATGTCTCAGG
Found at i:14392 original size:42 final size:42
Alignment explanation
Indices: 14345--14435 Score: 137
Period size: 42 Copynumber: 2.2 Consensus size: 42
14335 TTTAAGGAAG
*
14345 ACTCATGTCTTAGGATGAGAATGAGAATATGATTAAAGAAAA
1 ACTCATGTCTCAGGATGAGAATGAGAATATGATTAAAGAAAA
* * * *
14387 ACTCATGTGTCGGGATGAGAATGATAATATGATTAAAGAAAG
1 ACTCATGTCTCAGGATGAGAATGAGAATATGATTAAAGAAAA
14429 ACTCATG
1 ACTCATG
14436 AGTCGGAATG
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.42, C:0.09, G:0.23, T:0.26
Consensus pattern (42 bp):
ACTCATGTCTCAGGATGAGAATGAGAATATGATTAAAGAAAA
Found at i:14441 original size:42 final size:42
Alignment explanation
Indices: 14357--14447 Score: 146
Period size: 42 Copynumber: 2.2 Consensus size: 42
14347 TCATGTCTTA
*
14357 GGATGAGAATGAGAATATGATTAAAGAAAAACTCATGTGTCG
1 GGATGAGAATGAGAATATGATTAAAGAAAAACTCATGAGTCG
* *
14399 GGATGAGAATGATAATATGATTAAAGAAAGACTCATGAGTCG
1 GGATGAGAATGAGAATATGATTAAAGAAAAACTCATGAGTCG
*
14441 GAATGAG
1 GGATGAG
14448 CGTGGGATTA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.43, C:0.07, G:0.27, T:0.23
Consensus pattern (42 bp):
GGATGAGAATGAGAATATGATTAAAGAAAAACTCATGAGTCG
Found at i:21063 original size:50 final size:50
Alignment explanation
Indices: 20949--21136 Score: 259
Period size: 50 Copynumber: 3.7 Consensus size: 50
20939 TTATGCTCGC
* *
20949 CAGCTTGCACACGTTTATGCTCGTCAGCTTATTTATCGCGTTTACGCTCAT
1 CAGCTTGCACACGTTTACGCTCGTCAGCTTATTTAT-GTGTTTACGCTCAT
* * * *
21000 TAGCTTGCACACGTTTATGCTCGTCAACTTATTTATGTGTTTACGTTCAT
1 CAGCTTGCACACGTTTACGCTCGTCAGCTTATTTATGTGTTTACGCTCAT
* * **
21050 CAGCTTGCACACGTTTACGCTCGTCAGTTTATTTATGTGTTTATGCTCGC
1 CAGCTTGCACACGTTTACGCTCGTCAGCTTATTTATGTGTTTACGCTCAT
* *
21100 CAGCTTGCACATGTTTACGCTCGTCAGCTTTTTTATG
1 CAGCTTGCACACGTTTACGCTCGTCAGCTTATTTATG
21137 CGTACATAAA
Statistics
Matches: 122, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
50 88 0.72
51 34 0.28
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.40
Consensus pattern (50 bp):
CAGCTTGCACACGTTTACGCTCGTCAGCTTATTTATGTGTTTACGCTCAT
Found at i:21076 original size:24 final size:24
Alignment explanation
Indices: 20938--21129 Score: 87
Period size: 24 Copynumber: 7.7 Consensus size: 24
20928 ACTTATTGCA
* *
20938 TTTATGCTCGCCAGCTTGCACACG
1 TTTACGCTCGTCAGCTTGCACACG
* ** *
20962 TTTATGCTCGTCAGCTTATTTATCGCG
1 TTTACGCTCGTCAGC-T-TGCA-CACG
* *
20989 TTTACGCTCATTAGCTTGCACACG
1 TTTACGCTCGTCAGCTTGCACACG
* * ** ***
21013 TTTATGCTCGTCAACTTATTTATGTG
1 TTTACGCTCGTCAGC-T-TGCACACG
* *
21039 TTTACGTTCATCAGCTTGCACACG
1 TTTACGCTCGTCAGCTTGCACACG
* ** ***
21063 TTTACGCTCGTCAGTTTATTTATGTG
1 TTTACGCTCGTCAG-CT-TGCACACG
* * *
21089 TTTATGCTCGCCAGCTTGCACATG
1 TTTACGCTCGTCAGCTTGCACACG
21113 TTTACGCTCGTCAGCTT
1 TTTACGCTCGTCAGCTT
21130 TTTTATGCGT
Statistics
Matches: 116, Mismatches: 45, Indels: 14
0.66 0.26 0.08
Matches are distributed among these distances:
24 62 0.53
25 7 0.06
26 32 0.28
27 15 0.13
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (24 bp):
TTTACGCTCGTCAGCTTGCACACG
Found at i:42999 original size:23 final size:21
Alignment explanation
Indices: 42961--43022 Score: 58
Period size: 18 Copynumber: 3.0 Consensus size: 21
42951 AAATTCGAAT
**
42961 TTCGAGTTAAACGAATAAAATTA
1 TTCGAGTTAATTGAAT--AATTA
42984 TTCGAGTTAATTG---AATTA
1 TTCGAGTTAATTGAATAATTA
*
43002 TTCGAGTTAATTGAATTATTA
1 TTCGAGTTAATTGAATAATTA
43023 GAGTCAACTC
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
18 18 0.55
21 4 0.12
23 11 0.33
ACGTcount: A:0.39, C:0.06, G:0.15, T:0.40
Consensus pattern (21 bp):
TTCGAGTTAATTGAATAATTA
Found at i:43002 original size:18 final size:18
Alignment explanation
Indices: 42979--43026 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
42969 AAACGAATAA
42979 AATTATTCGAGTTAATTG
1 AATTATTCGAGTTAATTG
42997 AATTATTCGAGTTAATTG
1 AATTATTCGAGTTAATTG
*
43015 AATTATTAGAGT
1 AATTATTCGAGT
43027 CAACTCGATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.35, C:0.04, G:0.17, T:0.44
Consensus pattern (18 bp):
AATTATTCGAGTTAATTG
Found at i:43185 original size:28 final size:29
Alignment explanation
Indices: 43154--43208 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
43144 AACTCCAAAC
*
43154 CTTTTT-ACTTTTCCCCAAGACTTTTATT
1 CTTTTTCACTTTTCCCCAAAACTTTTATT
43182 CTTTTTCACTTTTCCCCAAAACTTTTA
1 CTTTTTCACTTTTCCCCAAAACTTTTA
43209 CTCTCCTCTC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 6 0.24
29 19 0.76
ACGTcount: A:0.20, C:0.27, G:0.02, T:0.51
Consensus pattern (29 bp):
CTTTTTCACTTTTCCCCAAAACTTTTATT
Found at i:43511 original size:30 final size:29
Alignment explanation
Indices: 43437--43520 Score: 98
Period size: 31 Copynumber: 2.8 Consensus size: 29
43427 TTTTTTTGAA
* * *
43437 TATTTTCCCTCCAAATTTTACTTTCTCTTTT
1 TATTTTCCTTCAAAATTTTAC--TCTCTTCT
43468 TATTTTCCTTCAAAATTTTACTCTCTTACT
1 TATTTTCCTTCAAAATTTTACTCTCTT-CT
43498 TACTTTT-CTTCAAAATTTTACTC
1 TA-TTTTCCTTCAAAATTTTACTC
43521 CCAAAACCTT
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
29 6 0.12
30 19 0.40
31 23 0.48
ACGTcount: A:0.21, C:0.24, G:0.00, T:0.55
Consensus pattern (29 bp):
TATTTTCCTTCAAAATTTTACTCTCTTCT
Found at i:47394 original size:73 final size:73
Alignment explanation
Indices: 47266--47423 Score: 201
Period size: 73 Copynumber: 2.2 Consensus size: 73
47256 GTTCACACAA
* * * * *
47266 GTTGGAACACGGGCCAGCACATGAGCGTATGCCTTGGGTAAATAGGTGCAAGTCTCACACGGGCA
1 GTTGGAACACGAGCCAACACACGAGCGTATGCCCTGGGTAAAAAGGTGCAAGTCTCACACGGGCA
*
47331 ACATA-AG
66 ACACATAG
* * * *
47338 TGTTGGAACACGAGCCAACACACGGGCGTGTGCCCTGGGTAAAAAGGTGTAGGTCTCACACGGGC
1 -GTTGGAACACGAGCCAACACACGAGCGTATGCCCTGGGTAAAAAGGTGCAAGTCTCACACGGGC
47403 AACACATAG
65 AACACATAG
*
47412 GTTGGGACACGA
1 GTTGGAACACGA
47424 CCGTGTGACC
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
73 71 0.97
74 2 0.03
ACGTcount: A:0.28, C:0.23, G:0.32, T:0.17
Consensus pattern (73 bp):
GTTGGAACACGAGCCAACACACGAGCGTATGCCCTGGGTAAAAAGGTGCAAGTCTCACACGGGCA
ACACATAG
Found at i:53801 original size:28 final size:28
Alignment explanation
Indices: 53770--53911 Score: 108
Period size: 28 Copynumber: 5.1 Consensus size: 28
53760 ATAGAGCGAC
53770 ATTCTGAATCTTGCTCGGGTAGAGCATT
1 ATTCTGAATCTTGCTCGGGTAGAGCATT
* * ** *
53798 ATTCT-ACTTTTAGCTTAGGTAGAGCATG
1 ATTCTGAATCTT-GCTCGGGTAGAGCATT
*
53826 ATACTGAATCTTGCTCGGGTAGAGCATT
1 ATTCTGAATCTTGCTCGGGTAGAGCATT
* * * **
53854 ATTCT-ACTTCTAGCTCGGGTATAGTGTT
1 ATTCTGA-ATCTTGCTCGGGTAGAGCATT
* * * * *
53882 ATACTGGATCTTGCTTGAGTAGAGCGTT
1 ATTCTGAATCTTGCTCGGGTAGAGCATT
53910 AT
1 AT
53912 GACTTCGTTA
Statistics
Matches: 85, Mismatches: 25, Indels: 8
0.72 0.21 0.07
Matches are distributed among these distances:
27 5 0.06
28 76 0.89
29 4 0.05
ACGTcount: A:0.23, C:0.16, G:0.24, T:0.37
Consensus pattern (28 bp):
ATTCTGAATCTTGCTCGGGTAGAGCATT
Found at i:53886 original size:56 final size:56
Alignment explanation
Indices: 53773--53911 Score: 179
Period size: 56 Copynumber: 2.5 Consensus size: 56
53763 GAGCGACATT
* *
53773 CTGAATCTTGCTCGGGTAGAGCATTATTCTACTTTTAGCTTAGGTAGAGCATGATA
1 CTGAATCTTGCTCGGGTAGAGCATTATTCTACTTCTAGCTCAGGTAGAGCATGATA
* * ** *
53829 CTGAATCTTGCTCGGGTAGAGCATTATTCTACTTCTAGCTCGGGTATAGTGTTATA
1 CTGAATCTTGCTCGGGTAGAGCATTATTCTACTTCTAGCTCAGGTAGAGCATGATA
* * * *
53885 CTGGATCTTGCTTGAGTAGAGCGTTAT
1 CTGAATCTTGCTCGGGTAGAGCATTAT
53912 GACTTCGTTA
Statistics
Matches: 72, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
56 72 1.00
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.37
Consensus pattern (56 bp):
CTGAATCTTGCTCGGGTAGAGCATTATTCTACTTCTAGCTCAGGTAGAGCATGATA
Found at i:55957 original size:21 final size:21
Alignment explanation
Indices: 55931--55981 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
55921 ACAGCGTTAG
*
55931 ACTTGTATTGGTAGAAATATC
1 ACTTGTATCGGTAGAAATATC
*
55952 ACTTGTATCGGTAGAACTATC
1 ACTTGTATCGGTAGAAATATC
55973 ACTTGTATC
1 ACTTGTATC
55982 AGTAAAAGTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (21 bp):
ACTTGTATCGGTAGAAATATC
Found at i:64468 original size:9 final size:9
Alignment explanation
Indices: 64454--64483 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
64444 TTAATTATTT
64454 ATTTCATGC
1 ATTTCATGC
64463 ATTTCATGC
1 ATTTCATGC
64472 ATCTTCATGC
1 AT-TTCATGC
64482 AT
1 AT
64484 CTTAGTCTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.23, C:0.23, G:0.10, T:0.43
Consensus pattern (9 bp):
ATTTCATGC
Found at i:64480 original size:10 final size:10
Alignment explanation
Indices: 64456--64486 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
64446 AATTATTTAT
64456 TTCATGCAT-
1 TTCATGCATC
64465 TTCATGCATC
1 TTCATGCATC
64475 TTCATGCATC
1 TTCATGCATC
64485 TT
1 TT
64487 AGTCTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.19, C:0.26, G:0.10, T:0.45
Consensus pattern (10 bp):
TTCATGCATC
Found at i:67157 original size:62 final size:62
Alignment explanation
Indices: 67060--67358 Score: 406
Period size: 62 Copynumber: 4.8 Consensus size: 62
67050 TATCATTCTC
* * * *
67060 GGATTCATTCTACATTTAATACTCATGATGACACAAAATTATCGGACCTTTAATCTGTAATA
1 GGATTCATTCTACATTTAATACTCACGATGACACAAAGTCATCGGACCTTTAATCCGTAATA
67122 GGATTCATTCTACATTTAATACTCACGATGACACAAAGTCATCGGACCTTTAATCCGTAATA
1 GGATTCATTCTACATTTAATACTCACGATGACACAAAGTCATCGGACCTTTAATCCGTAATA
* * * *
67184 GGATTCATTTCT-CATTTAATACTCATGATGACACAAAGCCATCAGACCTTTAATTCGTAATA
1 GGATTCA-TTCTACATTTAATACTCACGATGACACAAAGTCATCGGACCTTTAATCCGTAATA
* * * * *
67246 AGATTCATTTCT-CATTTAATACTCACGATGACACAAAGTAATTGGACCTCTAATCCATAATA
1 GGATTCA-TTCTACATTTAATACTCACGATGACACAAAGTCATCGGACCTTTAATCCGTAATA
* * *
67308 GTATTCATT-TATCATTTAATACTCACAATGACCCAAAGTCATCGGACCTTT
1 GGATTCATTCTA-CATTTAATACTCACGATGACACAAAGTCATCGGACCTTT
67359 TTGTATTTAC
Statistics
Matches: 210, Mismatches: 24, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
60 1 0.00
61 2 0.01
62 203 0.97
63 4 0.02
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.33
Consensus pattern (62 bp):
GGATTCATTCTACATTTAATACTCACGATGACACAAAGTCATCGGACCTTTAATCCGTAATA
Found at i:70478 original size:45 final size:46
Alignment explanation
Indices: 70400--70489 Score: 110
Period size: 45 Copynumber: 2.0 Consensus size: 46
70390 TACTAAGATT
* * **
70400 AAAGTTAACGTGAGTAAAGATGTTAGTTCAATTAAATC-AATCTGA
1 AAAGATAACGTGAGTAAAGATGTCAGTGAAATTAAATCAAATCTGA
* * *
70445 AAAGATAATGTGAGTAAAGTTGTCAGTGAAATTAAGTCAAATCTG
1 AAAGATAACGTGAGTAAAGATGTCAGTGAAATTAAATCAAATCTG
70490 CACACTAAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
45 31 0.84
46 6 0.16
ACGTcount: A:0.42, C:0.08, G:0.20, T:0.30
Consensus pattern (46 bp):
AAAGATAACGTGAGTAAAGATGTCAGTGAAATTAAATCAAATCTGA
Found at i:72091 original size:10 final size:9
Alignment explanation
Indices: 72068--72116 Score: 50
Period size: 8 Copynumber: 5.7 Consensus size: 9
72058 CAAACATAAT
72068 TTTTTCTTC
1 TTTTTCTTC
72077 TTTTTCTTC
1 TTTTTCTTC
*
72086 -TCTT-TTC
1 TTTTTCTTC
72093 TTTTTCTTTC
1 TTTTTC-TTC
*
72103 TTTATC-TC
1 TTTTTCTTC
72111 TTTTTC
1 TTTTTC
72117 CTTTTTATGT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
7 3 0.09
8 13 0.39
9 9 0.27
10 8 0.24
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTTTCTTC
Found at i:72120 original size:25 final size:25
Alignment explanation
Indices: 72068--72122 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
72058 CAAACATAAT
*
72068 TTTTTCTTCTTTTTCTTCTCTTTTC
1 TTTTTCTTCTTTATCTTCTCTTTTC
72093 TTTTTCTTTCTTTATC-TCT-TTTTCC
1 TTTTTC-TTCTTTATCTTCTCTTTT-C
72118 TTTTT
1 TTTTT
72123 ATGTGAATGA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 4 0.15
25 15 0.56
26 8 0.30
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (25 bp):
TTTTTCTTCTTTATCTTCTCTTTTC
Found at i:78034 original size:17 final size:17
Alignment explanation
Indices: 78007--78039 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
77997 TTCCCACAAG
78007 GTTGTTGAGTT-CTATT
1 GTTGTTGAGTTACTATT
78023 GTTGTATGAGTTACTAT
1 GTTGT-TGAGTTACTAT
78040 ATGAATTCCC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 6 0.40
18 4 0.27
ACGTcount: A:0.18, C:0.06, G:0.24, T:0.52
Consensus pattern (17 bp):
GTTGTTGAGTTACTATT
Found at i:79002 original size:9 final size:9
Alignment explanation
Indices: 78988--79012 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
78978 ATAGTGGTAG
78988 GTTGTTATT
1 GTTGTTATT
78997 GTTGTTATT
1 GTTGTTATT
79006 GTTGTTA
1 GTTGTTA
79013 CAAGCCATTT
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:0.12, C:0.00, G:0.24, T:0.64
Consensus pattern (9 bp):
GTTGTTATT
Found at i:86724 original size:24 final size:24
Alignment explanation
Indices: 86691--86737 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
86681 GTTAAGAGTA
*
86691 AAAATTGTCAGTGCAAATATAATAT
1 AAAATTGTCAGAGCAAAT-TAATAT
86716 AAAA-TGTCAGAGCAAATTAATA
1 AAAATTGTCAGAGCAAATTAATA
86738 AGAGAAGAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.24
24 12 0.57
25 4 0.19
ACGTcount: A:0.51, C:0.09, G:0.13, T:0.28
Consensus pattern (24 bp):
AAAATTGTCAGAGCAAATTAATAT
Found at i:89021 original size:18 final size:18
Alignment explanation
Indices: 88998--89054 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
88988 TGGCCATTCT
88998 AGATCTTTCTCCCTTTTC
1 AGATCTTTCTCCCTTTTC
** * *
89016 AGATC--T-AACCATTCC
1 AGATCTTTCTCCCTTTTC
89031 AGATCTTTCTCCCTTTTC
1 AGATCTTTCTCCCTTTTC
89049 AGATCT
1 AGATCT
89055 AACTCCTTGA
Statistics
Matches: 28, Mismatches: 8, Indels: 6
0.67 0.19 0.14
Matches are distributed among these distances:
15 10 0.36
16 1 0.04
17 1 0.04
18 16 0.57
ACGTcount: A:0.19, C:0.32, G:0.07, T:0.42
Consensus pattern (18 bp):
AGATCTTTCTCCCTTTTC
Found at i:89035 original size:33 final size:33
Alignment explanation
Indices: 88991--89057 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
88981 TAATCATTGG
*
88991 CCATTCTAGATCTTTCTCCCTTTTCAGATCTAA
1 CCATTCCAGATCTTTCTCCCTTTTCAGATCTAA
89024 CCATTCCAGATCTTTCTCCCTTTTCAGATCTAA
1 CCATTCCAGATCTTTCTCCCTTTTCAGATCTAA
89057 C
1 C
89058 TCCTTGATGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.21, C:0.33, G:0.06, T:0.40
Consensus pattern (33 bp):
CCATTCCAGATCTTTCTCCCTTTTCAGATCTAA
Found at i:89060 original size:18 final size:18
Alignment explanation
Indices: 89006--89060 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
88996 CTAGATCTTT
89006 CTCCCTTTTCAGATCTAA
1 CTCCCTTTTCAGATCTAA
* * **
89024 ---CCATTCCAGATCTTT
1 CTCCCTTTTCAGATCTAA
89039 CTCCCTTTTCAGATCTAA
1 CTCCCTTTTCAGATCTAA
89057 CTCC
1 CTCC
89061 TTGATGTAGC
Statistics
Matches: 26, Mismatches: 8, Indels: 6
0.65 0.20 0.15
Matches are distributed among these distances:
15 11 0.42
18 15 0.58
ACGTcount: A:0.20, C:0.36, G:0.05, T:0.38
Consensus pattern (18 bp):
CTCCCTTTTCAGATCTAA
Found at i:90370 original size:20 final size:20
Alignment explanation
Indices: 90326--90431 Score: 79
Period size: 20 Copynumber: 5.2 Consensus size: 20
90316 AAAAAGTTTG
*
90326 AAATCATTTTAAAATCAAGTTA
1 AAATCATTTT-AAA-CAAGTCA
*
90348 AAATTATTTTAAACAAGTCA
1 AAATCATTTTAAACAAGTCA
* * * *
90368 AAATAATTTGAACCAAGTTA
1 AAATCATTTTAAACAAGTCA
** *
90388 AAATCATTTT-AACACTTGA
1 AAATCATTTTAAACAAGTCA
**
90407 AAATGTTTTTCAAACAAGTCA
1 AAATCATTTT-AAACAAGTCA
90428 AAAT
1 AAAT
90432 AGCTCCAGGG
Statistics
Matches: 65, Mismatches: 17, Indels: 5
0.75 0.20 0.06
Matches are distributed among these distances:
19 13 0.20
20 30 0.46
21 13 0.20
22 9 0.14
ACGTcount: A:0.48, C:0.11, G:0.07, T:0.34
Consensus pattern (20 bp):
AAATCATTTTAAACAAGTCA
Found at i:91242 original size:2 final size:2
Alignment explanation
Indices: 91235--91268 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
91225 TGTTGTTATA
91235 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
91269 AATTAGCATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:97667 original size:27 final size:26
Alignment explanation
Indices: 97629--97679 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
97619 TACTATTTTA
97629 ATAATAAAAAGAAAGAGAAAAATGATG
1 ATAATAAAAAGAAAG-GAAAAATGATG
*
97656 ATAA-AAAGAAGAAAGGAAAGATGA
1 ATAATAAA-AAGAAAGGAAAAATGA
97680 ATTGGGGCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 11 0.50
27 11 0.50
ACGTcount: A:0.67, C:0.00, G:0.22, T:0.12
Consensus pattern (26 bp):
ATAATAAAAAGAAAGGAAAAATGATG
Found at i:98391 original size:23 final size:23
Alignment explanation
Indices: 98361--98440 Score: 115
Period size: 23 Copynumber: 3.5 Consensus size: 23
98351 AATGTATACT
*
98361 CGTAAACGTATCAGGCTGACGAG
1 CGTAAACGTATCAAGCTGACGAG
98384 CGTAAACGTATCAAGCTGACGAG
1 CGTAAACGTATCAAGCTGACGAG
* * *
98407 TGTAAACGTATCATGCTGACAAG
1 CGTAAACGTATCAAGCTGACGAG
*
98430 CGTAAATGTAT
1 CGTAAACGTAT
98441 TGTATTAATA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.23
Consensus pattern (23 bp):
CGTAAACGTATCAAGCTGACGAG
Found at i:103956 original size:31 final size:31
Alignment explanation
Indices: 103891--103949 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
103881 AGGAGTGTAA
103891 TAAAATGATAAAAGTATATAATAATAGTCAC
1 TAAAATGATAAAAGTATATAATAATAGTCAC
*
103922 TAAAATGA-AAACAGTATATAATAGTAGT
1 TAAAATGATAAA-AGTATATAATAATAGT
103950 ACCTAAATTG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 3 0.12
31 23 0.88
ACGTcount: A:0.54, C:0.05, G:0.12, T:0.29
Consensus pattern (31 bp):
TAAAATGATAAAAGTATATAATAATAGTCAC
Found at i:106868 original size:31 final size:32
Alignment explanation
Indices: 106800--106860 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
106790 TAGTCCCCTA
* * * *
106800 AAAAATTTTGGAAAATTGTTATTAGGCCCTCC
1 AAAATTTTTGGAAAATTCTCATTAAGCCCTCC
106832 AAAATTTTTGG-AAATTCTCATTAAGCCCT
1 AAAATTTTTGGAAAATTCTCATTAAGCCCT
106861 TTAAAATTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
31 15 0.60
32 10 0.40
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.36
Consensus pattern (32 bp):
AAAATTTTTGGAAAATTCTCATTAAGCCCTCC
Found at i:111735 original size:27 final size:27
Alignment explanation
Indices: 111697--111757 Score: 122
Period size: 27 Copynumber: 2.3 Consensus size: 27
111687 CTGCTCAATT
111697 GAAAACAAATCACATATAAAAGAAACG
1 GAAAACAAATCACATATAAAAGAAACG
111724 GAAAACAAATCACATATAAAAGAAACG
1 GAAAACAAATCACATATAAAAGAAACG
111751 GAAAACA
1 GAAAACA
111758 TAACACTGGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.64, C:0.15, G:0.11, T:0.10
Consensus pattern (27 bp):
GAAAACAAATCACATATAAAAGAAACG
Found at i:115490 original size:101 final size:101
Alignment explanation
Indices: 115312--115525 Score: 322
Period size: 101 Copynumber: 2.1 Consensus size: 101
115302 TCACAACGGT
* *
115312 TTGGCATCCTGTGCCTCATCGGATAAATCCGAAGTAATAAATCGTGCCCTACACTAAAATAAAGT
1 TTGGCATCCTGTGCCTCATCGGATAAATCCGAAGTAATAAATCGAGCCATACACTAAAATAAAGT
* *
115377 TGACACCGAGTGTCTCATCGGTTAAACCGAAGTAAA
66 TGACACCCAGTGTCTCATCGGTTAAACCAAAGTAAA
* * * *
115413 TTGGCATCTTGT-CACTCATCGGATAAATTCGAAGTAATAAATCGAGCCATGCGCTAAAATAAAG
1 TTGGCATCCTGTGC-CTCATCGGATAAATCCGAAGTAATAAATCGAGCCATACACTAAAATAAAG
*
115477 TTGACACCCAGTGTCTCATCGGTTAAATCAAAGTAAA
65 TTGACACCCAGTGTCTCATCGGTTAAACCAAAGTAAA
*
115514 TTGGCACCCTGT
1 TTGGCATCCTGT
115526 ACTCTTTCTA
Statistics
Matches: 101, Mismatches: 11, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
100 1 0.01
101 100 0.99
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (101 bp):
TTGGCATCCTGTGCCTCATCGGATAAATCCGAAGTAATAAATCGAGCCATACACTAAAATAAAGT
TGACACCCAGTGTCTCATCGGTTAAACCAAAGTAAA
Found at i:116946 original size:15 final size:14
Alignment explanation
Indices: 116918--116948 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
116908 TATTCAATTA
116918 TATAAATTATTTTT
1 TATAAATTATTTTT
*
116932 TATAAATTAATTTT
1 TATAAATTATTTTT
116946 TAT
1 TAT
116949 TATTTATGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TATAAATTATTTTT
Found at i:117824 original size:33 final size:32
Alignment explanation
Indices: 117731--117856 Score: 89
Period size: 33 Copynumber: 3.7 Consensus size: 32
117721 AATATTTTAA
*
117731 TATATAAAATATTAATTTTAAATATTTCTATGTAAT
1 TATAT-AAATA-T-ATTTTAAATATTT-AATGTAAT
* *
117767 TAATATTAATA-ATTTAAAAT-TTTAAT-TAGAT
1 T-ATATAAATATATTTTAAATATTTAATGTA-AT
*
117798 TATATAAACTATATTTTAAATATTTAAATATAAT
1 TATATAAA-TATATTTTAAATATTT-AATGTAAT
117832 TAT-TAAATATTTATATTTAAATATT
1 TATATAAATA--TAT-TTTAAATATT
117857 AGCATAGTTG
Statistics
Matches: 75, Mismatches: 5, Indels: 21
0.74 0.05 0.21
Matches are distributed among these distances:
30 8 0.11
31 7 0.09
32 13 0.17
33 15 0.20
34 11 0.15
35 12 0.16
36 5 0.07
37 4 0.05
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (32 bp):
TATATAAATATATTTTAAATATTTAATGTAAT
Found at i:117851 original size:14 final size:14
Alignment explanation
Indices: 117816--117857 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
117806 CTATATTTTA
117816 AATATTTAAATA-T
1 AATATTTAAATATT
117829 AAT-TATTAAATATT
1 AATAT-TTAAATATT
*
117843 TATATTTAAATATT
1 AATATTTAAATATT
117857 A
1 A
117858 GCATAGTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
12 1 0.04
13 10 0.42
14 12 0.50
15 1 0.04
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AATATTTAAATATT
Found at i:117856 original size:21 final size:21
Alignment explanation
Indices: 117813--117857 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
117803 AAACTATATT
*
117813 TTAAATATTTAAATATAATTA
1 TTAAATATTTAAATATAAATA
* *
117834 TTAAATATTTATATTTAAATA
1 TTAAATATTTAAATATAAATA
117855 TTA
1 TTA
117858 GCATAGTTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTAAATATTTAAATATAAATA
Found at i:119673 original size:72 final size:71
Alignment explanation
Indices: 119500--119754 Score: 431
Period size: 72 Copynumber: 3.6 Consensus size: 71
119490 AACAAATTTT
* * * *
119500 ATATCC-AAAATCAAATATAAACAACTATTGATAATACTAGATTGCACATAAATAAGTAGAAAAT
1 ATATCCAAAAACCAAACATAAACAACTATTGATAAAACTAGATTGCACATAAATAAGTAGAACAT
119564 AAATCA
66 AAATCA
*
119570 ATATCCAAAAACCAAACATAAACAACTATTGATCAAACTAGATTGCACATAAATAAGTAGAACAT
1 ATATCCAAAAACCAAACATAAACAACTATTGATAAAACTAGATTGCACATAAATAAGTAGAACAT
119635 AAATCCA
66 AAAT-CA
*
119642 ATATCCAAAAACCAAACATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACAT
1 ATATCCAAAAACCAAACATAAACAACTATTGATAAAACTAGATTGCACATAAATAAGTAGAACAT
119707 AAATTCA
66 AAA-TCA
119714 ATATCCAAAAACCAAACATAAACAACTATTGATAAAACTAG
1 ATATCCAAAAACCAAACATAAACAACTATTGATAAAACTAG
119755 TTTAGCATTG
Statistics
Matches: 175, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
70 6 0.03
71 57 0.33
72 111 0.63
73 1 0.01
ACGTcount: A:0.55, C:0.17, G:0.06, T:0.22
Consensus pattern (71 bp):
ATATCCAAAAACCAAACATAAACAACTATTGATAAAACTAGATTGCACATAAATAAGTAGAACAT
AAATCA
Found at i:120226 original size:18 final size:18
Alignment explanation
Indices: 120185--120236 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
120175 CTTTTCCATC
* *
120185 AATGTTAACATTATTTGA
1 AATGTTAACATCATTTAA
*
120203 AGTGTTAACATCATTTAA
1 AATGTTAACATCATTTAA
*
120221 AATGTTGACATCATTT
1 AATGTTAACATCATTT
120237 CCTGCATTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.42
Consensus pattern (18 bp):
AATGTTAACATCATTTAA
Found at i:127710 original size:17 final size:17
Alignment explanation
Indices: 127688--127723 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
127678 TATAAGGAAG
* *
127688 ATAACCAACTAGAGGCT
1 ATAACCAACCAGAAGCT
127705 ATAACCAACCAGAAGCT
1 ATAACCAACCAGAAGCT
127722 AT
1 AT
127724 TCCCAAAGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.44, C:0.25, G:0.14, T:0.17
Consensus pattern (17 bp):
ATAACCAACCAGAAGCT
Found at i:130257 original size:21 final size:22
Alignment explanation
Indices: 130205--130266 Score: 74
Period size: 21 Copynumber: 2.9 Consensus size: 22
130195 GAACTGTGCA
**
130205 GATTTCTACCGATACCTGTACT
1 GATTTCTACCGATACAAGTACT
* *
130227 -AGTTCCACCGATACAAGTA-T
1 GATTTCTACCGATACAAGTACT
130247 GATTTCTACCGATACAAGTA
1 GATTTCTACCGATACAAGTA
130267 ATGCAACTAC
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
20 1 0.03
21 32 0.97
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.31
Consensus pattern (22 bp):
GATTTCTACCGATACAAGTACT
Found at i:132523 original size:38 final size:38
Alignment explanation
Indices: 132463--132542 Score: 106
Period size: 38 Copynumber: 2.1 Consensus size: 38
132453 GTGATTGTAA
* * * *
132463 GGTGTTTATCGGGCTTAGTGCCTAGCAAGCTTCGTGCC
1 GGTGGTTATCGAGCTTAATGCCTAACAAGCTTCGTGCC
* *
132501 GGTGGTTATCGAGCTTAATGCCTAACAAGCTTCTTGCT
1 GGTGGTTATCGAGCTTAATGCCTAACAAGCTTCGTGCC
132539 GGTG
1 GGTG
132543 TATTGAATCA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.16, C:0.21, G:0.30, T:0.33
Consensus pattern (38 bp):
GGTGGTTATCGAGCTTAATGCCTAACAAGCTTCGTGCC
Found at i:136228 original size:29 final size:28
Alignment explanation
Indices: 136177--136538 Score: 226
Period size: 29 Copynumber: 12.3 Consensus size: 28
136167 AGTTTCAAAG
* *
136177 AGTTTGGGGTTAAAATGTAATTTTGGAA
1 AGTTTAGGGTAAAAATGTAATTTTGGAA
* *
136205 AGTTTAAGGGTAAAAAAGTCATTTTGGGAA
1 AGTTT-AGGGTAAAAATGTAATTTT-GGAA
* **
136235 AGTTTAGGGTAAAAATGTGATTTTAAAAA
1 AGTTTAGGGTAAAAATGTAATTTT-GGAA
* *
136264 AGTTTAGGGGAAAAATGTAATTTTAGAGA
1 AGTTTAGGGTAAAAATGTAATTTTGGA-A
* * *
136293 AGTTTAGGGGTAAAATTTTATTTTTTGG-A
1 AGTTTA-GGGTAAAAATGTA-ATTTTGGAA
* *
136322 AGTTTAGGGGTAAAAATGTATTTTTTGAGA
1 AGTTTA-GGGTAAAAATGTAATTTTGGA-A
*
136352 AGTTTGAGGGTAAAAAATGTGATTTTTGG-A
1 AGTTT-AGGGT-AAAAATGT-AATTTTGGAA
* *
136382 AGTTTAGGGGAAAAATGTAATTTTTGAGA
1 AGTTTAGGGTAAAAATGTAATTTTGGA-A
* ** * *
136411 AGTTCGATAGTAAAAATTTAATTTTTGAA
1 AGTT-TAGGGTAAAAATGTAATTTTGGAA
* * **
136440 AGTTTAGGGCTCAAAATGTGATTTTAAAA
1 AGTTTAGGG-TAAAAATGTAATTTTGGAA
* * ** *
136469 ATGTTTAGGGCTTAAAATGCAATTAAAGAAA
1 A-GTTTAGGG-TAAAAATGTAATT-TTGGAA
* *
136500 AGTTTAGGGGTCAAAATATG-GATTTTGGAT
1 AGTTTA-GGGT-AAAA-ATGTAATTTTGGAA
136530 AGTTTAGGG
1 AGTTTAGGG
136539 ACCTTCTAGG
Statistics
Matches: 266, Mismatches: 49, Indels: 37
0.76 0.14 0.11
Matches are distributed among these distances:
27 6 0.02
28 23 0.09
29 114 0.43
30 86 0.32
31 27 0.10
32 10 0.04
ACGTcount: A:0.37, C:0.02, G:0.25, T:0.36
Consensus pattern (28 bp):
AGTTTAGGGTAAAAATGTAATTTTGGAA
Found at i:136237 original size:30 final size:29
Alignment explanation
Indices: 136177--136464 Score: 230
Period size: 29 Copynumber: 9.8 Consensus size: 29
136167 AGTTTCAAAG
* *
136177 AGTTTGGGGTTAAAATGTAA-TTTTGGAA
1 AGTTTAGGGTAAAAATGTAATTTTTGGAA
* * *
136205 AGTTTAAGGGTAAAAAAGTCATTTTGGGAA
1 AGTTT-AGGGTAAAAATGTAATTTTTGGAA
* ***
136235 AGTTTAGGGTAAAAATGTGATTTTAAAAA
1 AGTTTAGGGTAAAAATGTAATTTTTGGAA
* *
136264 AGTTTAGGGGAAAAATGTAA-TTTTAGAGA
1 AGTTTAGGGTAAAAATGTAATTTTTGGA-A
* * *
136293 AGTTTAGGGGTAAAATTTTATTTTTTGG-A
1 AGTTTA-GGGTAAAAATGTAATTTTTGGAA
*
136322 AGTTTAGGGGTAAAAATGT-ATTTTTTGAGA
1 AGTTTA-GGGTAAAAATGTAATTTTTGGA-A
*
136352 AGTTTGAGGGTAAAAAATGTGATTTTTGG-A
1 AGTTT-AGGGT-AAAAATGTAATTTTTGGAA
*
136382 AGTTTAGGGGAAAAATGTAATTTTT-GAGA
1 AGTTTAGGGTAAAAATGTAATTTTTGGA-A
* ** *
136411 AGTTCGATAGTAAAAATTTAATTTTT-GAA
1 AGTT-TAGGGTAAAAATGTAATTTTTGGAA
* *
136440 AGTTTAGGGCTCAAAATGTGATTTT
1 AGTTTAGGG-TAAAAATGTAATTTT
136465 AAAAATGTTT
Statistics
Matches: 209, Mismatches: 37, Indels: 27
0.77 0.14 0.10
Matches are distributed among these distances:
27 1 0.00
28 32 0.15
29 99 0.47
30 56 0.27
31 14 0.07
32 7 0.03
ACGTcount: A:0.36, C:0.01, G:0.25, T:0.38
Consensus pattern (29 bp):
AGTTTAGGGTAAAAATGTAATTTTTGGAA
Found at i:136250 original size:58 final size:58
Alignment explanation
Indices: 136177--136445 Score: 235
Period size: 59 Copynumber: 4.6 Consensus size: 58
136167 AGTTTCAAAG
* * * * * *
136177 AGTTTGGGGTTAAAATGTAATTTTGGAAAGTTTAAGGGTAAAAAAGTCA-TTTTGGGAA
1 AGTTTAGGGTAAAAATGTAATTTTGGAAAGTTTAAGGGGAAAAATGTAATTTTTGAG-A
* ** *
136235 AGTTTAGGGTAAAAATGTGATTTTAAAAAAGTTT-AGGGGAAAAATGTAATTTTAGAGA
1 AGTTTAGGGTAAAAATGTAATTTT-GGAAAGTTTAAGGGGAAAAATGTAATTTTTGAGA
* * * *
136293 AGTTTAGGGGTAAAATTTTATTTTTTGG-AAGTTT-AGGGGTAAAAATGTATTTTTTGAGA
1 AGTTTA-GGGTAAAAATGTA-ATTTTGGAAAGTTTAAGGGG-AAAAATGTAATTTTTGAGA
*
136352 AGTTTGAGGGTAAAAAATGTGATTTTTGG-AAGTTT-AGGGGAAAAATGTAATTTTTGAGA
1 AGTTT-AGGGT-AAAAATGT-AATTTTGGAAAGTTTAAGGGGAAAAATGTAATTTTTGAGA
* ** * *
136411 AGTTCGATAGTAAAAATTTAATTTTTGAAAGTTTA
1 AGTT-TAGGGTAAAAATGTAATTTTGGAAAGTTTA
136446 GGGCTCAAAA
Statistics
Matches: 173, Mismatches: 27, Indels: 21
0.78 0.12 0.10
Matches are distributed among these distances:
57 6 0.03
58 64 0.37
59 73 0.42
60 29 0.17
61 1 0.01
ACGTcount: A:0.37, C:0.01, G:0.25, T:0.38
Consensus pattern (58 bp):
AGTTTAGGGTAAAAATGTAATTTTGGAAAGTTTAAGGGGAAAAATGTAATTTTTGAGA
Found at i:136389 original size:118 final size:117
Alignment explanation
Indices: 136188--136464 Score: 319
Period size: 118 Copynumber: 2.4 Consensus size: 117
136178 GTTTGGGGTT
* * *
136188 AAAATGTAA-TTTTGGAAAGTTTAAGGGTAAAAAAGTCATTTTGGGAAAGTTTAGGGTAAAAATG
1 AAAATTTAATTTTTGG-AAGTTTAGGGGTAAAAATGTCATTTTGGGAAAGTTTAGGGTAAAAATG
*
136252 TGATTTTAAAAAAGTTTAGGGGAAAAATGTAATTTTAGAGAAGTTTAG-GGGTA
65 TGATTTTAAAAAAGTTTAGGGGAAAAATGTAATTTTAGAGAAG-TTAGAGAGTA
* * **
136305 AAATTTTATTTTTTGGAAGTTTAGGGGTAAAAATGT-ATTTTTTGAGAAGTTTGAGGGTAAAAAA
1 AAAATTTAATTTTTGGAAGTTTAGGGGTAAAAATGTCATTTTGGGA-AAGTTT-AGGGT-AAAAA
*** * * *
136369 TGTGATTTT-TGGAAGTTTAGGGGAAAAATGTAATTTTTGAGAAGTTCGATAGTA
63 TGTGATTTTAAAAAAGTTTAGGGGAAAAATGTAATTTTAGAGAAGTTAGAGAGTA
* * * *
136423 AAAATTTAATTTTTGAAAGTTTAGGGCTCAAAATGTGATTTT
1 AAAATTTAATTTTTGGAAGTTTAGGGGTAAAAATGTCATTTT
136465 AAAAATGTTT
Statistics
Matches: 135, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
116 7 0.05
117 33 0.24
118 76 0.56
119 19 0.14
ACGTcount: A:0.37, C:0.01, G:0.24, T:0.37
Consensus pattern (117 bp):
AAAATTTAATTTTTGGAAGTTTAGGGGTAAAAATGTCATTTTGGGAAAGTTTAGGGTAAAAATGT
GATTTTAAAAAAGTTTAGGGGAAAAATGTAATTTTAGAGAAGTTAGAGAGTA
Found at i:136505 original size:30 final size:30
Alignment explanation
Indices: 136438--136516 Score: 88
Period size: 30 Copynumber: 2.6 Consensus size: 30
136428 TTAATTTTTG
* * *
136438 AAAGTTTAGGGCTCAAAATGTGATTTTAAA
1 AAAGTTTAGGGCTCAAAATGTCAATTAAAA
* *
136468 AATGTTTAGGGCTTAAAATG-CAATTAAAGA
1 AAAGTTTAGGGCTCAAAATGTCAATTAAA-A
*
136498 AAAGTTTAGGGGTCAAAAT
1 AAAGTTTAGGGCTCAAAAT
136517 ATGGATTTTG
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
29 5 0.12
30 35 0.88
ACGTcount: A:0.42, C:0.06, G:0.22, T:0.30
Consensus pattern (30 bp):
AAAGTTTAGGGCTCAAAATGTCAATTAAAA
Found at i:138231 original size:17 final size:17
Alignment explanation
Indices: 138211--138298 Score: 79
Period size: 17 Copynumber: 5.1 Consensus size: 17
138201 AATTAAATTT
138211 TAAATTTAAATTCAAAA
1 TAAATTTAAATTCAAAA
**
138228 TAAATTTAAACTAAAAAA
1 TAAATTTAAA-TTCAAAA
* *
138246 TAAGTTTAAATTTAAAA
1 TAAATTTAAATTCAAAA
*
138263 CAAATTTAAACTT-AAAA
1 TAAATTTAAA-TTCAAAA
**
138280 TAAAATAAAAATTCAAAA
1 T-AAATTTAAATTCAAAA
138298 T
1 T
138299 TTAAAATTGG
Statistics
Matches: 57, Mismatches: 10, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
17 29 0.51
18 28 0.49
ACGTcount: A:0.61, C:0.06, G:0.01, T:0.32
Consensus pattern (17 bp):
TAAATTTAAATTCAAAA
Found at i:138292 original size:35 final size:35
Alignment explanation
Indices: 138218--138297 Score: 92
Period size: 35 Copynumber: 2.3 Consensus size: 35
138208 TTTTAAATTT
* **
138218 AAATTCAAAATAAATTTAAACTAAAAAATAAGTTT
1 AAATTCAAAACAAATTTAAACTAAAAAATAAGTAA
*
138253 AAATTTAAAACAAATTTAAACTTAAAATAA-AA-TAA
1 AAATTCAAAACAAATTTAAAC-TAAAA-AATAAGTAA
138288 AAATTCAAAA
1 AAATTCAAAA
138298 TTTAAAATTG
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
35 29 0.76
36 7 0.18
37 2 0.05
ACGTcount: A:0.64, C:0.06, G:0.01, T:0.29
Consensus pattern (35 bp):
AAATTCAAAACAAATTTAAACTAAAAAATAAGTAA
Found at i:138841 original size:39 final size:39
Alignment explanation
Indices: 138787--138984 Score: 150
Period size: 39 Copynumber: 5.1 Consensus size: 39
138777 ATTTTTTTGG
*
138787 ATGGTTGCAATCTGCCCCTGACTCGGGGTAAAAGATCGA
1 ATGGTTGTAATCTGCCCCTGACTCGGGGTAAAAGATCGA
* * * *
138826 ATGGTTGTAATCTG-CCCTAAGCTCGGGGTAAGAGATTGG
1 ATGGTTGTAATCTGCCCCTGA-CTCGGGGTAAAAGATCGA
* * * * * *
138865 CTGATGGTGATCTGCCTCATG-CTCAGGGTAAAAGATCGA
1 ATGGTTGTAATCTGCC-CCTGACTCGGGGTAAAAGATCGA
* * * * * *
138904 ATGGCTGTAATCTGCCCCAGGCTCGGGGTAAGAGATTGG
1 ATGGTTGTAATCTGCCCCTGACTCGGGGTAAAAGATCGA
* * * * *
138943 CTGATGGTGATCTGCCCC-AAGCTCGGGGTAAAAGATCGA
1 ATGGTTGTAATCTGCCCCTGA-CTCGGGGTAAAAGATCGA
138982 ATG
1 ATG
138985 ACTGCTATCT
Statistics
Matches: 117, Mismatches: 37, Indels: 10
0.71 0.23 0.06
Matches are distributed among these distances:
38 7 0.06
39 107 0.91
40 1 0.01
41 2 0.02
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.24
Consensus pattern (39 bp):
ATGGTTGTAATCTGCCCCTGACTCGGGGTAAAAGATCGA
Found at i:138899 original size:78 final size:77
Alignment explanation
Indices: 138812--139095 Score: 408
Period size: 78 Copynumber: 3.6 Consensus size: 77
138802 CCCTGACTCG
* *
138812 GGGTAAAAGATCGAATGGTTGTAATCTGCCCTAAGCTCGGGGTAAGAGATTGGCTGATGGTGATC
1 GGGTAAAAGATCGAATGGCTGTAATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTGATC
* *
138877 TGCCTCATGCTC
66 TGCCCCAAGCTC
*
138889 AGGGTAAAAGATCGAATGGCTGTAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGAT
1 -GGGTAAAAGATCGAATGGCTGTAATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTGAT
138954 CTGCCCCAAGCTC
65 CTGCCCCAAGCTC
* * *
138967 GGGGTAAAAGATCGAATGACTGCT-ATCTACCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTTA
1 -GGGTAAAAGATCGAATGGCTG-TAATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTGA
*
139031 TCTGCCCCAGGCTC
64 TCTGCCCCAAGCTC
* * * *
139045 GAGGTAAAAGATCGAATTGCTGCAATCTGCCTCAAGCTCAGGGTAAGAGAT
1 G-GGTAAAAGATCGAATGGCTGTAATCTGCCCCAAGCTCGGGGTAAGAGAT
139096 CGGATGGCTG
Statistics
Matches: 186, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
77 1 0.01
78 184 0.99
79 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (77 bp):
GGGTAAAAGATCGAATGGCTGTAATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTGATC
TGCCCCAAGCTC
Found at i:139000 original size:39 final size:40
Alignment explanation
Indices: 138808--139290 Score: 290
Period size: 39 Copynumber: 12.4 Consensus size: 40
138798 CTGCCCCTGA
* * ** * *
138808 CTCGGGGTAAAAGATCGAATGGTTG-TAATCTGCCCTAAG
1 CTCGGGGTAAGAGATCGGATGACTGCTGATCTGCCCCAAG
* * * * *
138847 CTCGGGGTAAGAGATTGGCTGA-TGGTGATCTGCCTCATG
1 CTCGGGGTAAGAGATCGGATGACTGCTGATCTGCCCCAAG
* * * * * *
138886 CTCAGGGTAAAAGATCGAATGGCTG-TAATCTGCCCCAGG
1 CTCGGGGTAAGAGATCGGATGACTGCTGATCTGCCCCAAG
* * *
138925 CTCGGGGTAAGAGATTGGCTGA-TGGTGATCTGCCCCAAG
1 CTCGGGGTAAGAGATCGGATGACTGCTGATCTGCCCCAAG
* * *
138964 CTCGGGGTAAAAGATCGAATGACTGCT-ATCTACCCCAAG
1 CTCGGGGTAAGAGATCGGATGACTGCTGATCTGCCCCAAG
* * * * *
139003 CTCGGGGTAAGAGATTGGCTGA-TGGTTATCTGCCCCAGG
1 CTCGGGGTAAGAGATCGGATGACTGCTGATCTGCCCCAAG
* * * * *
139042 CTCGAGGTAAAAGATCGAATTG-CTGC-AATCTGCCTCAAG
1 CTCGGGGTAAGAGATCGGA-TGACTGCTGATCTGCCCCAAG
* * * * * **
139081 CTCAGGGTAAGAGATCGGATGGCTGC-CATTTGCTCCTGG
1 CTCGGGGTAAGAGATCGGATGACTGCTGATCTGCCCCAAG
* * * * * *
139120 CTCGAGGTAAAAGATTGGTTGA-TGGTGATCTGCCTCAAG
1 CTCGGGGTAAGAGATCGGATGACTGCTGATCTGCCCCAAG
* * * *
139159 CTCGGGGTAAGAGATCGGATGGCTAC-AATCTGCCCCAAC
1 CTCGGGGTAAGAGATCGGATGACTGCTGATCTGCCCCAAG
* * * * * * * *
139198 CTTGGGGTAAGAGATTGGCTG-GTGGTGATCTACCTCAGG
1 CTCGGGGTAAGAGATCGGATGACTGCTGATCTGCCCCAAG
* * * *
139237 CTCGGGGTAAGAGATCGAATGACTGC-AATCTACCCCTAG
1 CTCGGGGTAAGAGATCGGATGACTGCTGATCTGCCCCAAG
* *
139276 CTTGGGGTAAAAGAT
1 CTCGGGGTAAGAGAT
139291 TGGCTGATGG
Statistics
Matches: 328, Mismatches: 104, Indels: 24
0.72 0.23 0.05
Matches are distributed among these distances:
38 12 0.04
39 304 0.93
40 12 0.04
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (40 bp):
CTCGGGGTAAGAGATCGGATGACTGCTGATCTGCCCCAAG
Found at i:139122 original size:78 final size:76
Alignment explanation
Indices: 138796--139182 Score: 327
Period size: 78 Copynumber: 5.0 Consensus size: 76
138786 GATGGTTGCA
* * * * * * *
138796 ATCTGCCCCTGACTCGGGGTAAAAGATCGAATGGTTGTAATCTGCCCTAAGCTCGGGGTAAGAGA
1 ATCTGCCCCAGGCTCGAGGTAAAAGATCGAATTGCTGCAATCTGCCCCAAGCTCGGGGTAAGAGA
*
138861 TTGGCTGATGG-TG
66 -T--CGGATGGCTG
* * * * *
138874 ATCTGCCTCATGCTC-AGGGTAAAAGATCGAATGGCTGTAATCTGCCCCAGGCTCGGGGTAAGAG
1 ATCTGCCCCAGGCTCGA-GGTAAAAGATCGAATTGCTGCAATCTGCCCCAAGCTCGGGGTAAGAG
*
138938 ATTGGCTGATGG-TG
65 A-T--CGGATGGCTG
* * * *
138952 ATCTGCCCCAAGCTCGGGGTAAAAGATCGAA-TGACTGCTATCTACCCCAAGCTCGGGGTAAGAG
1 ATCTGCCCCAGGCTCGAGGTAAAAGATCGAATTG-CTGCAATCTGCCCCAAGCTCGGGGTAAGAG
* *
139016 ATTGGCTGATGG-TT
65 A-T--CGGATGGCTG
* *
139030 ATCTGCCCCAGGCTCGAGGTAAAAGATCGAATTGCTGCAATCTGCCTCAAGCTCAGGGTAAGAGA
1 ATCTGCCCCAGGCTCGAGGTAAAAGATCGAATTGCTGCAATCTGCCCCAAGCTCGGGGTAAGAGA
139095 TCGGATGGCTG
66 TCGGATGGCTG
* * * * * * ** *
139106 CCATTTGCTCCTGGCTCGAGGTAAAAGATTG-GTTGATGGTGATCTGCCTCAAGCTCGGGGTAAG
1 --ATCTGCCCCAGGCTCGAGGTAAAAGATCGAATTGCT-GCAATCTGCCCCAAGCTCGGGGTAAG
139170 AGATCGGATGGCT
63 AGATCGGATGGCT
139183 ACAATCTGCC
Statistics
Matches: 267, Mismatches: 34, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
75 6 0.02
76 1 0.00
77 6 0.02
78 252 0.94
79 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (76 bp):
ATCTGCCCCAGGCTCGAGGTAAAAGATCGAATTGCTGCAATCTGCCCCAAGCTCGGGGTAAGAGA
TCGGATGGCTG
Found at i:139207 original size:78 final size:78
Alignment explanation
Indices: 138952--139412 Score: 344
Period size: 78 Copynumber: 5.9 Consensus size: 78
138942 GCTGATGGTG
* ** * * *
138952 ATCTGCCCCAAGCTCGGGGTAAAAGATCGAATGACTGCT-ATCTACCCCAAGCTCGGGGTAAGAG
1 ATCTGCCCCAAGCTCGGGGTAAAAGATTGGCTGA-TGGTGATCTGCCTCAAGCTCGGGGTAAGAG
* ** * **
139016 ATTGGCT-GATGGTT
65 ATCGAATGGCT-GCA
* * * ** * *
139030 ATCTGCCCCAGGCTCGAGGTAAAAGATCGAAT--TGCTGCAATCTGCCTCAAGCTCAGGGTAAGA
1 ATCTGCCCCAAGCTCGGGGTAAAAGATTGGCTGATGGTG--ATCTGCCTCAAGCTCGGGGTAAGA
* *
139093 GATCGGATGGCTGCC
64 GATCGAATGGCTGCA
* * ** * *
139108 ATTTGCTCCTGGCTCGAGGTAAAAGATTGGTTGATGGTGATCTGCCTCAAGCTCGGGGTAAGAGA
1 ATCTGCCCCAAGCTCGGGGTAAAAGATTGGCTGATGGTGATCTGCCTCAAGCTCGGGGTAAGAGA
* *
139173 TCGGATGGCTACA
66 TCGAATGGCTGCA
* * * * * *
139186 ATCTGCCCCAACCTTGGGGTAAGAGATTGGCTGGTGGTGATCTACCTCAGGCTCGGGGTAAGAGA
1 ATCTGCCCCAAGCTCGGGGTAAAAGATTGGCTGATGGTGATCTGCCTCAAGCTCGGGGTAAGAGA
*
139251 TCGAATGACTGCA
66 TCGAATGGCTGCA
* * * * * *
139264 ATCTACCCCTAGCTTGGGGTAAAAGATTGGCTGATGGTGA-CTTACCACACA-CTCGGGGTAAAA
1 ATCTGCCCCAAGCTCGGGGTAAAAGATTGGCTGATGGTGATC-TGCCTCA-AGCTCGGGGTAAGA
*
139327 AATCGAATGGCTGCA
64 GATCGAATGGCTGCA
* * * * * * *
139342 ATCTGCCCC-AGACTCAGGGTAAGAGATTGGCTTACGGTGATCTGACC-CAGGCTCGAGGTAAAA
1 ATCTGCCCCAAG-CTCGGGGTAAAAGATTGGCTGATGGTGATCTG-CCTCAAGCTCGGGGTAAGA
139405 GATCGAAT
64 GATCGAAT
139413 CTTCAATCTG
Statistics
Matches: 316, Mismatches: 55, Indels: 24
0.80 0.14 0.06
Matches are distributed among these distances:
75 4 0.01
77 3 0.01
78 300 0.95
79 5 0.02
80 4 0.01
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (78 bp):
ATCTGCCCCAAGCTCGGGGTAAAAGATTGGCTGATGGTGATCTGCCTCAAGCTCGGGGTAAGAGA
TCGAATGGCTGCA
Found at i:139362 original size:156 final size:156
Alignment explanation
Indices: 139069--139412 Score: 390
Period size: 156 Copynumber: 2.2 Consensus size: 156
139059 AATTGCTGCA
* * * * * * * * * *
139069 ATCTGCCTCAAGCTCAGGGTAAGAGATCGGATGGCTGCCATTTGCTCCTGGCTCGAGGTAAAAGA
1 ATCTACCTCAGGCTCGGGGTAAGAGATCGAATGACTGCAATCTACCCCTAGCTCGAGGTAAAAGA
* * * * * *
139134 TTGGTTGATGGTGATCTGCCTCAAGCTCGGGGTAAGAGATCGGATGGCTACAATCTGCCCCAACC
66 TTGGCTGATGGTGATCTACCACAAGCTCGGGGTAAAAAATCGAATGGCTACAATCTGCCCCAACC
** **
139199 TTGGGGTAAGAGATTGGCTGGTGGTG
131 TCAGGGTAAGAGATTGGCTGACGGTG
* *
139225 ATCTACCTCAGGCTCGGGGTAAGAGATCGAATGACTGCAATCTACCCCTAGCTTGGGGTAAAAGA
1 ATCTACCTCAGGCTCGGGGTAAGAGATCGAATGACTGCAATCTACCCCTAGCTCGAGGTAAAAGA
*
139290 TTGGCTGATGGTGA-CTTACCACACA-CTCGGGGTAAAAAATCGAATGGCTGCAATCTGCCCCAG
66 TTGGCTGATGGTGATC-TACCACA-AGCTCGGGGTAAAAAATCGAATGGCTACAATCTGCCCCA-
*
139353 A-CTCAGGGTAAGAGATTGGCTTACGGTG
128 ACCTCAGGGTAAGAGATTGGCTGACGGTG
* *
139381 ATCTGACC-CAGGCTCGAGGTAAAAGATCGAAT
1 ATCT-ACCTCAGGCTCGGGGTAAGAGATCGAAT
139413 CTTCAATCTG
Statistics
Matches: 158, Mismatches: 26, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
155 1 0.01
156 152 0.96
157 5 0.03
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.23
Consensus pattern (156 bp):
ATCTACCTCAGGCTCGGGGTAAGAGATCGAATGACTGCAATCTACCCCTAGCTCGAGGTAAAAGA
TTGGCTGATGGTGATCTACCACAAGCTCGGGGTAAAAAATCGAATGGCTACAATCTGCCCCAACC
TCAGGGTAAGAGATTGGCTGACGGTG
Found at i:149650 original size:29 final size:29
Alignment explanation
Indices: 149460--149879 Score: 202
Period size: 30 Copynumber: 14.3 Consensus size: 29
149450 AAAGGGGTCG
* *
149460 AAAATG-AAGTTTTAGAGAGTTT-GGGGTT
1 AAAATGTAATTTTTAGA-AGTTTAGGGGTA
* * *
149488 AAAATGTAATTTTAAAAAGTTTATGGGTA
1 AAAATGTAATTTTTAGAAGTTTAGGGGTA
* *
149517 AAAATTTTCA-TTTTAGGAAAGTTTAGGGGTA
1 AAAA-TGTAATTTTTA-G-AAGTTTAGGGGTA
* * * *
149548 AAAATGTGATTTTTTAGAAGTATGGGGGCA
1 AAAATGT-AATTTTTAGAAGTTTAGGGGTA
** *
149578 AAAATGTAATTGTCAAGAAGTTT--GAGTA
1 AAAATGTAATT-TTTAGAAGTTTAGGGGTA
*
149606 TTAAAATGTGATTTTTTAGAAGTTTAGGGGTA
1 --AAAATGT-AATTTTTAGAAGTTTAGGGGTA
149638 AAAATGTAATTTTTGAGAAGTTCGTA--GGTA
1 AAAATGTAATTTTT-AGAAGTT--TAGGGGTA
* *
149668 AAAATGTGAA-TTTTGGAAGTTTAGGGGCA
1 AAAATGT-AATTTTTAGAAGTTTAGGGGTA
* * * *
149697 AAAATGTGATTTTTGGAAG-TTCGAGGGTC
1 AAAATGTAATTTTTAGAAGTTTAG-GGGTA
* * * *
149726 AAAATGTGA-TTTTAGAAGTTCAAGAG-A
1 AAAATGTAATTTTTAGAAGTTTAGGGGTA
* *
149753 AAAATGTAATTTTTGAGAA-CTTCGAGGGTA
1 AAAATGTAATTTTT-AGAAGTTTAG-GGGTA
* * * * * * *
149783 AAACTATGATTTTTGGAAGATTGGGGGTC
1 AAAATGTAATTTTTAGAAGTTTAGGGGTA
* * *
149812 AAAATGTGATTTTTGAGAAG-TTCGAGGATA
1 AAAATGTAATTTTT-AGAAGTTTAG-GGGTA
* * *
149842 AAAATGTGA-TTTTAGAAAAGTTTAAGGGTT
1 AAAATGTAATTTTTAG--AAGTTTAGGGGTA
149872 AAAATGTA
1 AAAATGTA
149880 GTTTAGGAAA
Statistics
Matches: 297, Mismatches: 63, Indels: 62
0.70 0.15 0.15
Matches are distributed among these distances:
27 10 0.03
28 35 0.12
29 98 0.33
30 119 0.40
31 24 0.08
32 11 0.04
ACGTcount: A:0.36, C:0.03, G:0.25, T:0.35
Consensus pattern (29 bp):
AAAATGTAATTTTTAGAAGTTTAGGGGTA
Found at i:149700 original size:59 final size:58
Alignment explanation
Indices: 149544--149858 Score: 300
Period size: 59 Copynumber: 5.4 Consensus size: 58
149534 AAAGTTTAGG
* * * * ** *
149544 GGTAAAAATGTGATTTTTTAGAAGTATGGGGGCAAAAATGTAATTGTCAAGAAGTTTGA
1 GGTAAAAATGTGA-ATTTTAGAAGTTTAGGGGCAAAAATGTAATTTTTGAGAAGTTCGA
* *
149603 -GTATTAAAATGTGATTTTTTAGAAGTTTAGGGGTAAAAATGTAATTTTTGAGAAGTTCGTA
1 GGTA--AAAATGTGA-ATTTTAGAAGTTTAGGGGCAAAAATGTAATTTTTGAGAAGTTCG-A
* *
149664 GGTAAAAATGTGAATTTTGGAAGTTTAGGGGCAAAAATGTGATTTTTG-GAAGTTCGA
1 GGTAAAAATGTGAATTTTAGAAGTTTAGGGGCAAAAATGTAATTTTTGAGAAGTTCGA
* * * * *
149721 GGGTCAAAATGTG-ATTTTAGAAGTTCAAGAG-AAAAATGTAATTTTTGAGAACTTCGA
1 -GGTAAAAATGTGAATTTTAGAAGTTTAGGGGCAAAAATGTAATTTTTGAGAAGTTCGA
* * * * * * *
149778 GGGTAAAACTATGATTTTTGGAAGATTGGGGGTC-AAAATGTGATTTTTGAGAAGTTCGA
1 -GGTAAAAATGTGAATTTTAGAAGTTTAGGGG-CAAAAATGTAATTTTTGAGAAGTTCGA
149837 GGATAAAAATGTG-ATTTTAGAA
1 GG-TAAAAATGTGAATTTTAGAA
149859 AAGTTTAAGG
Statistics
Matches: 212, Mismatches: 34, Indels: 21
0.79 0.13 0.08
Matches are distributed among these distances:
56 15 0.07
57 33 0.16
58 42 0.20
59 62 0.29
60 56 0.26
61 1 0.00
62 3 0.01
ACGTcount: A:0.36, C:0.04, G:0.26, T:0.34
Consensus pattern (58 bp):
GGTAAAAATGTGAATTTTAGAAGTTTAGGGGCAAAAATGTAATTTTTGAGAAGTTCGA
Found at i:149898 original size:29 final size:30
Alignment explanation
Indices: 149807--149905 Score: 94
Period size: 30 Copynumber: 3.3 Consensus size: 30
149797 GGAAGATTGG
* * * **
149807 GGGTCAAAATGTGATTTTTGAGAAGTTCGA
1 GGGTCAAAATGTGAGTTTAGAAAAGTTTAA
* * *
149837 GGATAAAAATGTGATTTTAGAAAAGTTTAA
1 GGGTCAAAATGTGAGTTTAGAAAAGTTTAA
*
149867 GGGTTAAAATGT-AGTTTAGGAAAAGTTT-A
1 GGGTCAAAATGTGAGTTTA-GAAAAGTTTAA
149896 GGGTCAAAAT
1 GGGTCAAAAT
149906 ATGGTTTCTG
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
29 15 0.26
30 43 0.74
ACGTcount: A:0.38, C:0.03, G:0.26, T:0.32
Consensus pattern (30 bp):
GGGTCAAAATGTGAGTTTAGAAAAGTTTAA
Found at i:149912 original size:29 final size:29
Alignment explanation
Indices: 149852--149912 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
149842 AAAATGTGAT
* *
149852 TTTAGAAAAGTTTAAGGGTTAAAATGTAG
1 TTTAGAAAAGTTTAAGGGTCAAAATATAG
*
149881 TTTAGGAAAAGTTT-AGGGTCAAAATATGG
1 TTTA-GAAAAGTTTAAGGGTCAAAATATAG
149910 TTT
1 TTT
149913 CTGAACAGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 19 0.68
30 9 0.32
ACGTcount: A:0.38, C:0.02, G:0.25, T:0.36
Consensus pattern (29 bp):
TTTAGAAAAGTTTAAGGGTCAAAATATAG
Found at i:151509 original size:17 final size:16
Alignment explanation
Indices: 151489--151561 Score: 56
Period size: 17 Copynumber: 4.2 Consensus size: 16
151479 AATTAAATTT
151489 TAAATTTAAATTCAAAA
1 TAAATTTAAATT-AAAA
*
151506 TAAATTTAAACTAAAAAA
1 TAAATTTAAA-T-TAAAA
** *
151524 TAAGCTAAAATTTAAAA
1 TAAATTTAAA-TTAAAA
*
151541 TAAATTTATACTTAAAA
1 TAAATTTA-AATTAAAA
151558 TAAA
1 TAAA
151562 ATAAAAATTT
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
17 29 0.67
18 14 0.33
ACGTcount: A:0.60, C:0.05, G:0.01, T:0.33
Consensus pattern (16 bp):
TAAATTTAAATTAAAA
Found at i:151569 original size:35 final size:35
Alignment explanation
Indices: 151496--151576 Score: 101
Period size: 35 Copynumber: 2.3 Consensus size: 35
151486 TTTTAAATTT
* **
151496 AAATTCAAAATAAATTTAAACTAAAAAATAAGCTA
1 AAATTTAAAATAAATTTAAACTAAAAAATAAAATA
* *
151531 AAATTTAAAATAAATTTATACT-TAAAATAAAATAA
1 AAATTTAAAATAAATTTAAACTAAAAAATAAAAT-A
151566 AAATTTAAAAT
1 AAATTTAAAAT
151577 TTAAAATTGG
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
34 8 0.20
35 32 0.80
ACGTcount: A:0.63, C:0.05, G:0.01, T:0.31
Consensus pattern (35 bp):
AAATTTAAAATAAATTTAAACTAAAAAATAAAATA
Done.