Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003662.1 Hibiscus syriacus cultivar Beakdansim tig00007797_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: 118763
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Found at i:1980 original size:37 final size:39
Alignment explanation
Indices: 1939--2015 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
1929 TACATTTTGG
1939 TCACTAACCAAAA-TTTGGGG-TGTTACAAACATCATGT
1 TCACTAACCAAAATTTTGGGGTTGTTACAAACATCATGT
*
1976 TCACTAACTAAAATTTTGGGGTTGTTACAAACATCATGT
1 TCACTAACCAAAATTTTGGGGTTGTTACAAACATCATGT
2015 T
1 T
2016 AACAACTTGG
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
37 12 0.32
38 7 0.19
39 18 0.49
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.34
Consensus pattern (39 bp):
TCACTAACCAAAATTTTGGGGTTGTTACAAACATCATGT
Found at i:5986 original size:24 final size:25
Alignment explanation
Indices: 5959--6005 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
5949 ATTTAGTAAA
* *
5959 AAAAGAATAATAAA-ATTAAAAAAT
1 AAAAGAACAATAAATAATAAAAAAT
*
5983 AAAATAACAATAAATAATAAAAA
1 AAAAGAACAATAAATAATAAAAA
6006 TATTTAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 12 0.63
25 7 0.37
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (25 bp):
AAAAGAACAATAAATAATAAAAAAT
Found at i:5988 original size:18 final size:18
Alignment explanation
Indices: 5957--6004 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
5947 AAATTTAGTA
*
5957 AAAAAAGAATAATAA-AATT
1 AAAAAATAA-AATAACAA-T
5976 AAAAAATAAAATAACAAT
1 AAAAAATAAAATAACAAT
*
5994 AAATAATAAAA
1 AAAAAATAAAA
6005 ATATTTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 16 0.62
19 10 0.38
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (18 bp):
AAAAAATAAAATAACAAT
Found at i:7331 original size:36 final size:39
Alignment explanation
Indices: 7276--7582 Score: 251
Period size: 38 Copynumber: 8.3 Consensus size: 39
7266 AAATAATAAA
* *
7276 AATATAT-TATATAT-AAAAATTTTTTCAAAAAC-ATAT
1 AATATATATATATTTCAAAAATGTTTTCAAAAACTATAT
* * *
7312 AATATATA-AT-TTTCCAAAATGTTTTAAAAAAAT-TAT
1 AATATATATATATTTCAAAAATGTTTTCAAAAACTATAT
* * *
7348 -ATATATATGT-TTTCAAAAGTG-TTTAAAAAAC--TAT
1 AATATATATATATTTCAAAAATGTTTTCAAAAACTATAT
* *
7382 -ATAT-TACATATTTC-AAAATGTTTTTAAAAACTATAT
1 AATATATATATATTTCAAAAATGTTTTCAAAAACTATAT
* *
7418 AATATATAAATATTTTAAAAATGTTTTC-AAAACTATAT
1 AATATATATATATTTCAAAAATGTTTTCAAAAACTATAT
* *
7456 ATTATTTA-AGT-TTTCAAAAATGTTTTCAAAAACTATAT
1 AATATATATA-TATTTCAAAAATGTTTTCAAAAACTATAT
* *
7494 ATTATATATAT-TTTCAAAAATGTTTTAAAAAACTATAT
1 AATATATATATATTTCAAAAATGTTTTCAAAAACTATAT
* ** *
7532 ATTATATACGTAT-TTTCAAAAACCATTTGC--AAACTATAT
1 AATATATA--TATATTTCAAAAA-TGTTTTCAAAAACTATAT
7571 AATATATATATA
1 AATATATATATA
7583 ATATGGACGA
Statistics
Matches: 227, Mismatches: 26, Indels: 34
0.79 0.09 0.12
Matches are distributed among these distances:
33 8 0.04
34 20 0.09
35 18 0.08
36 39 0.17
37 23 0.10
38 77 0.34
39 27 0.12
40 12 0.05
41 3 0.01
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.42
Consensus pattern (39 bp):
AATATATATATATTTCAAAAATGTTTTCAAAAACTATAT
Found at i:7350 original size:38 final size:37
Alignment explanation
Indices: 7290--7553 Score: 267
Period size: 38 Copynumber: 7.1 Consensus size: 37
7280 TATTATATAT
* *
7290 AAAAATTTTTTCAAAAACATATA-A-TATATAATTTTC
1 AAAAATGTTTTAAAAAAC-TATATATTATATAATTTTC
* * *
7326 CAAAATGTTTTAAAAAAAT-TATA-TATATATGTTTTC
1 AAAAATGTTTTAAAAAACTATATATTATATA-ATTTTC
* *
7362 AAAAGTG-TTTAAAAAACTATATATTACAT-A-TTTC
1 AAAAATGTTTTAAAAAACTATATATTATATAATTTTC
* * *
7396 -AAAATGTTTTTAAAAACTATATAATATATAAATATTTT
1 AAAAATGTTTTAAAAAACTATATATTATAT-AAT-TTTC
* *
7434 AAAAATGTTTT-CAAAACTATATATTATTTAAGTTTTC
1 AAAAATGTTTTAAAAAACTATATATTATATAA-TTTTC
*
7471 AAAAATGTTTTCAAAAACTATATATTATATATATTTTC
1 AAAAATGTTTTAAAAAACTATATATTATATA-ATTTTC
7509 AAAAATGTTTTAAAAAACTATATATTATATACGTATTTTC
1 AAAAATGTTTTAAAAAACTATATATTATATA---ATTTTC
7549 AAAAA
1 AAAAA
7554 CCATTTGCAA
Statistics
Matches: 191, Mismatches: 22, Indels: 26
0.80 0.09 0.11
Matches are distributed among these distances:
33 5 0.03
34 25 0.13
35 18 0.09
36 29 0.15
37 20 0.10
38 71 0.37
39 11 0.06
40 12 0.06
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.42
Consensus pattern (37 bp):
AAAAATGTTTTAAAAAACTATATATTATATAATTTTC
Found at i:8364 original size:84 final size:84
Alignment explanation
Indices: 8123--9741 Score: 1905
Period size: 84 Copynumber: 19.4 Consensus size: 84
8113 CAGTTTGTGA
* * * * * * *
8123 CAGATAGCCCTTCTTGCCTTGAGCTATGCTGTAAATTGGATATGCCTTTGAGTTGA--GT-GT--
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAA-T-GATGTGCCTTGGAGCTGAGCGTAGTCG
* **
8183 AA-TCGAAGGTC-TTGGTTCA
64 AACTCGAAGGTCTTTTGTTGG
* ** * * * *
8202 CAGATAACCCTTCTCGCCTTGAGTTATGCTATAAATTTGATGTGCATTTGAGCTGAGTGTAATCG
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAA--TGATGTGCCTTGGAGCTGAGCGTAGTCG
*
8267 AACTCGAAGGTCTTTTGTTGA
64 AACTCGAAGGTCTTTTGTTGG
* * * * *
8288 CAGATAACCCTTATCGCCTTGAGCTATGCTGCAAATGATGTGCCTTGGAGTTGAGCGTAATCGAA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
8353 CTCGAAGGTCTTTTGTTGG
66 CTCGAAGGTCTTTTGTTGG
* * * * * *
8372 CAGATAACCCTTTTAGCCTTGAGTTATGCTACAAAT-AT-TG---TGGAGATGAGTGTAATCAAA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
*
8432 CTCGAAGGTCTTTTATTGG
66 CTCGAAGGTCTTTTGTTGG
*
8451 CAGATAACCCTTCTAGACTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
8516 CTCGAAGGTCTTTTGTTGG
66 CTCGAAGGTCTTTTGTTGG
* * *
8535 TAGATAACCCTTCCAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAATCGAA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
*
8600 CTCGAAGGTCTTTTGGTGG
66 CTCGAAGGTCTTTTGTTGG
* * * * * *
8619 CAAATAACCCTTCTTGCCTTGAGCTATGTTGTAAATGATGTGCCTTGGAGCTGATCGTAGTCGAA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
* *
8684 CTCGAAGGTCTTTGGTTGA
66 CTCGAAGGTCTTTTGTTGG
* * * * * *
8703 CAAATAACCCTTCTAGCCTTGAGTTATGCTGCAAATTATGAGCCTTTGAGCAGAGCGTATTCGAA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
* * *
8768 CTCGTAGGTTTTTTGTTAG
66 CTCGAAGGTCTTTTGTTGG
* * * * ** * * * * *
8787 CAAATAGCCCTTCTTGCCTTGAGCTATATTGCAAATGATGTACCTTAGAACTGAGCGTAATAGAA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
8852 CTCGAAGGTCTTTTGTTGG
66 CTCGAAGGTCTTTTGTTGG
* * * *
8871 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATTGAA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
8936 CTCGAAGGTCTTTTGTTGG
66 CTCGAAGGTCTTTTGTTGG
*
8955 CAGATAACCCTT-TAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
*
9019 CTCGAAGGTATTTTGTTGG
66 CTCGAAGGTCTTTTGTTGG
* * * *
9038 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTAGTGTTGAGCGTAATCGAA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
* *
9103 CTCGAATGTCTTTTGGTGG
66 CTCGAAGGTCTTTTGTTGG
* * ** * * *
9122 CAAATAACCCTTATTTCCTTGAGCTATGTTACAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
*
9187 CTCGAAGGTCTTTGGTTGG
66 CTCGAAGGTCTTTTGTTGG
* * * * * * *
9206 CAGATAACCCTTCTAGCATTGAGTTATGCTGTAAATGATATGTCTTTGAGCTGAGTGTAGTCCAA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
* *
9271 CTCGAAAGTCTTTTGGTGG
66 CTCGAAGGTCTTTTGTTGG
* * ** * * * * *
9290 CAAATAACCCTTCTTGTGTTGAGCTATGTTGTAAATGATATGTCTTGGAGCTGAGCGTAGTCGAA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
* *
9355 CTCGAAGGTCTTTGGTTAG
66 CTCGAAGGTCTTTTGTTGG
* ** *
9374 CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCTTTAAGCTGAGCGTAGTTGAA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
9439 CTCGAAGGTCTTTTGTTGG
66 CTCGAAGGTCTTTTGTTGG
* * * * * * * * * *
9458 CAAATAATCCTTCTTGTCTTGAGTTATGTTTCAAATGGTATGCATTGGAGTTGAGCGTAGTCGAA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
*
9523 CTCGAAGGTCTTTTATTGG
66 CTCGAAGGTCTTTTGTTGG
* * * *
9542 AAGATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATGTGCTTTGGAGCTGAGCGTAGTCGAA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
9607 CTCGAAGGTCTTTTGTTGG
66 CTCGAAGGTCTTTTGTTGG
* * * * * * *
9626 CAGATAACCCTTCTCGCCTTGAGCTATGCTGCAAATGTTGTGTCTTTGAGCTGAGTGTAATCGAA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
* *
9691 TTCAAAGGTCTTTTGTTGG
66 CTCGAAGGTCTTTTGTTGG
* * *
9710 AAGATAATCCTTCTAGCATTGAGTTATGCTGC
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGC
9742 CAATAGTTTC
Statistics
Matches: 1314, Mismatches: 212, Indels: 23
0.85 0.14 0.01
Matches are distributed among these distances:
79 114 0.09
80 4 0.00
81 4 0.00
82 3 0.00
83 79 0.06
84 1064 0.81
85 9 0.01
86 37 0.03
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.34
Consensus pattern (84 bp):
CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
CTCGAAGGTCTTTTGTTGG
Found at i:11082 original size:100 final size:98
Alignment explanation
Indices: 10863--11135 Score: 363
Period size: 100 Copynumber: 2.7 Consensus size: 98
10853 GGCTAGATGG
* * * * *
10863 ATCCATAAAGCCAGGGCGTTTAACCCATTTCTCTAGAGGGAC-ACTCAA--TATCATTGTATAGA
1 ATCCATAAAG-CAGGGCGTTTAACCAATTACTTTAGAGGGACAACTCAAGCT-TTATTGTATACA
10925 TATTATAATCACCTTTATCAGGCTAGCTGAATATT
64 TATTATAATCACCTTTATCAGGCTAGCTGAATATT
*
10960 ATCCATAAAGCCGAGGCGTTTAACCAATTACTTTAGAGGGACAACTCAAGCTTTATTGTATACAT
1 ATCCATAAAGCAG-GGCGTTTAACCAATTACTTTAGAGGGACAACTCAAGCTTTATTGTATACAT
* *
11025 ATTATAATCACCTTTATCAGGTTTAGCTGAATCTT
65 ATTATAATCACCTTTATCAGG-CTAGCTGAATATT
* * *
11060 ATCCATAAAGCTTGGGCGTTTAACCAATTGCTTTAGAGGGACAACTCAAGCTTTATTGTATATAT
1 ATCCATAAAGC-AGGGCGTTTAACCAATTACTTTAGAGGGACAACTCAAGCTTTATTG--TATAC
11125 ATATTATAATC
63 ATATTATAATC
11136 TGGGTATGCG
Statistics
Matches: 157, Mismatches: 11, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
96 2 0.01
97 35 0.22
98 6 0.04
99 32 0.20
100 66 0.42
101 1 0.01
102 15 0.10
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (98 bp):
ATCCATAAAGCAGGGCGTTTAACCAATTACTTTAGAGGGACAACTCAAGCTTTATTGTATACATA
TTATAATCACCTTTATCAGGCTAGCTGAATATT
Found at i:15152 original size:38 final size:37
Alignment explanation
Indices: 15110--15335 Score: 120
Period size: 38 Copynumber: 6.3 Consensus size: 37
15100 TTTCAAAAAC
15110 ATATA-ATATATAGTTTTCCAAAA-TGTTTTAAAAAAATT
1 ATATATATATAT-GTTTT-CAAAAGTG-TTTAAAAAAATT
15148 ATATATATATATGTTTTCAAAAGTGTTT-AAAAAA-T
1 ATATATATATATGTTTTCAAAAGTGTTTAAAAAAATT
** **** *
15183 ATAT-TGCATA--TTTTCAAAA-TGTTTTTTTTAAACT
1 ATATATATATATGTTTTCAAAAGTG-TTTAAAAAAATT
* * ** *
15217 ATATATATATA--ATAT-ATAAA-TGTTTTCAAAACTAT
1 ATATATATATATGTTTTCA-AAAGTGTTTAAAAAAAT-T
* ** *
15252 ATATATATA-A-GTTTTCAAAAATGTTTTCAAAAACT
1 ATATATATATATGTTTTCAAAAGTGTTTAAAAAAATT
* * *
15287 ATATATTATATATATTTTCAAAAATGTTTTAAAAAATT
1 ATATA-TATATATGTTTTCAAAAGTGTTTAAAAAAATT
15325 ATATATATATA
1 ATATATATATA
15336 CGTATTTTCA
Statistics
Matches: 153, Mismatches: 21, Indels: 29
0.75 0.10 0.14
Matches are distributed among these distances:
31 2 0.01
32 12 0.08
33 3 0.02
34 17 0.11
35 37 0.24
36 22 0.14
37 15 0.10
38 39 0.25
39 6 0.04
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (37 bp):
ATATATATATATGTTTTCAAAAGTGTTTAAAAAAATT
Found at i:15156 original size:37 final size:34
Alignment explanation
Indices: 15093--15335 Score: 176
Period size: 36 Copynumber: 6.9 Consensus size: 34
15083 ATTATATATA
*
15093 AAAATATTTTCAAAAACA-TATA-ATATATAGTTTTCC
1 AAAATGTTTT-AAAAA-ATTATATATATATA-TTTT-C
15129 AAAATGTTTTAAAAAAATTATATATATATATGTTTTC
1 AAAATGTTTT-AAAAAATTATATATATATA--TTTTC
**
15166 AAAA-GTGTTTAAAAAA-TATAT-TGCATATTTTC
1 AAAATGT-TTTAAAAAATTATATATATATATTTTC
*** * * *
15198 AAAATGTTTTTTTTAAACTATATATATATAATAT-
1 AAAATG-TTTTAAAAAATTATATATATATATTTTC
* *
15232 ATAAATGTTTT-CAAAACTATATATATATAAGTTTTC
1 A-AAATGTTTTAAAAAATTATATATATAT-A-TTTTC
*
15268 AAAAATGTTTTCAAAAACTATATATTATATATATTTTC
1 -AAAATGTTTT-AAAAAAT-TATA-TATATATATTTTC
15306 AAAAATGTTTTAAAAAATTATATATATATA
1 -AAAATGTTTTAAAAAATTATATATATATA
15336 CGTATTTTCA
Statistics
Matches: 171, Mismatches: 19, Indels: 35
0.76 0.08 0.16
Matches are distributed among these distances:
32 9 0.05
33 22 0.13
34 16 0.09
35 27 0.16
36 39 0.23
37 22 0.13
38 24 0.14
39 5 0.03
40 7 0.04
ACGTcount: A:0.46, C:0.06, G:0.05, T:0.44
Consensus pattern (34 bp):
AAAATGTTTTAAAAAATTATATATATATATTTTC
Found at i:15261 original size:26 final size:25
Alignment explanation
Indices: 15222--15271 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
15212 AAACTATATA
15222 TATATAATATATAAATGTTTTCAAAAC
1 TATATAATATAT-AA-GTTTTCAAAAC
15249 TATAT-ATATATAAGTTTTCAAAA
1 TATATAATATATAAGTTTTCAAAA
15272 ATGTTTTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 10 0.43
25 2 0.09
26 6 0.26
27 5 0.22
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.42
Consensus pattern (25 bp):
TATATAATATATAAGTTTTCAAAAC
Found at i:19307 original size:17 final size:16
Alignment explanation
Indices: 19287--19327 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
19277 TTTTTAACTA
*
19287 TTTTATAATTATAAGT
1 TTTTATAATTATAAAT
*
19303 CTTTTATAATTTTAAAT
1 -TTTTATAATTATAAAT
19320 TTTTATAA
1 TTTTATAA
19328 ATTAAATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (16 bp):
TTTTATAATTATAAAT
Found at i:24766 original size:20 final size:19
Alignment explanation
Indices: 24728--24781 Score: 72
Period size: 20 Copynumber: 2.8 Consensus size: 19
24718 TACTGTTCAT
*
24728 AGTTTGGAAACTTTGTAAG
1 AGTTTCGAAACTTTGTAAG
* *
24747 AGTTTTGAAACTTTATTAAG
1 AGTTTCGAAACTTT-GTAAG
24767 AGTTTCGAAACTTTG
1 AGTTTCGAAACTTTG
24782 CACCCATAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 13 0.43
20 17 0.57
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.41
Consensus pattern (19 bp):
AGTTTCGAAACTTTGTAAG
Found at i:24864 original size:20 final size:20
Alignment explanation
Indices: 24839--24939 Score: 76
Period size: 20 Copynumber: 5.5 Consensus size: 20
24829 TTAAGTAAAG
24839 GTTTCGAAACTTTCATCAAA
1 GTTTCGAAACTTTCATCAAA
**
24859 GTTTCGAAACTTTCAAGAATA
1 GTTTCGAAACTTTCATCAA-A
24880 GTTT-G----TTT-A--AAA
1 GTTTCGAAACTTTCATCAAA
* *
24892 GTTTCGATACTTTC-GCAAA
1 GTTTCGAAACTTTCATCAAA
*
24911 GTTTCGAAACTTTCTTCAAA
1 GTTTCGAAACTTTCATCAAA
*
24931 GTTTTGAAA
1 GTTTCGAAA
24940 ATGCATGTGC
Statistics
Matches: 66, Mismatches: 5, Indels: 20
0.73 0.05 0.22
Matches are distributed among these distances:
12 5 0.08
13 3 0.05
15 1 0.02
16 3 0.05
17 3 0.05
19 16 0.24
20 30 0.45
21 5 0.08
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.39
Consensus pattern (20 bp):
GTTTCGAAACTTTCATCAAA
Found at i:24913 original size:19 final size:20
Alignment explanation
Indices: 24889--24939 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
24879 AGTTTGTTTA
*
24889 AAAGTTTCGATACTTTC-GC
1 AAAGTTTCGAAACTTTCTGC
*
24908 AAAGTTTCGAAACTTTCTTC
1 AAAGTTTCGAAACTTTCTGC
*
24928 AAAGTTTTGAAA
1 AAAGTTTCGAAA
24940 ATGCATGTGC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (20 bp):
AAAGTTTCGAAACTTTCTGC
Found at i:26871 original size:11 final size:11
Alignment explanation
Indices: 26855--26881 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
26845 TTTGAGTTAA
26855 TTAAAATGTGT
1 TTAAAATGTGT
26866 TTAAAATGTGT
1 TTAAAATGTGT
26877 TTAAA
1 TTAAA
26882 GCTTTTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (11 bp):
TTAAAATGTGT
Found at i:26989 original size:19 final size:20
Alignment explanation
Indices: 26961--27033 Score: 69
Period size: 19 Copynumber: 3.7 Consensus size: 20
26951 TAATATTCAT
*
26961 AGTTTGGAAACTTT-GTAAG
1 AGTTTCGAAACTTTAGTAAG
* *
26980 AGTTTTGAAACTTTTATTAAG
1 AGTTTCGAAAC-TTTAGTAAG
* *
27001 AGTTTCGAAACTTTA-CAAA
1 AGTTTCGAAACTTTAGTAAG
*
27020 AGTTTCAAAACTTT
1 AGTTTCGAAACTTT
27034 GCACCCAGAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
19 25 0.54
20 7 0.15
21 14 0.30
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.40
Consensus pattern (20 bp):
AGTTTCGAAACTTTAGTAAG
Found at i:27167 original size:19 final size:19
Alignment explanation
Indices: 27143--27187 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
27133 AGTGTGTTTA
27143 AAAGTTTTGATACTTTCAC
1 AAAGTTTTGATACTTTCAC
27162 AAAGTTTTGATACTTTCAC
1 AAAGTTTTGATACTTTCAC
27181 AAAGTTT
1 AAAGTTT
27188 CGAAACTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.42
Consensus pattern (19 bp):
AAAGTTTTGATACTTTCAC
Found at i:27195 original size:19 final size:19
Alignment explanation
Indices: 27143--27212 Score: 79
Period size: 19 Copynumber: 3.6 Consensus size: 19
27133 AGTGTGTTTA
* *
27143 AAAGTTTTGATACTTTCAC
1 AAAGTTTCGAAACTTTCAC
* *
27162 AAAGTTTTGATACTTTCAC
1 AAAGTTTCGAAACTTTCAC
27181 AAAGTTTCGAAACTTTTTCA-
1 AAAGTTTCGAAAC--TTTCAC
27201 AAAGTTTCGAAA
1 AAAGTTTCGAAA
27213 TTGCATGTGT
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
19 30 0.64
20 12 0.26
21 5 0.11
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (19 bp):
AAAGTTTCGAAACTTTCAC
Found at i:33112 original size:21 final size:21
Alignment explanation
Indices: 33053--33150 Score: 115
Period size: 21 Copynumber: 4.7 Consensus size: 21
33043 ATTTTTCAGA
*
33053 AAAAGGATCAATCCATTTCTC
1 AAAAGGATCAATCCCTTTCTC
** * *
33074 AAAATAATCTATCTCTTTCTC
1 AAAAGGATCAATCCCTTTCTC
** *
33095 AAAAGGATTGATCCCTTTCTG
1 AAAAGGATCAATCCCTTTCTC
33116 AAAAGGATCAATCCCTTTCTC
1 AAAAGGATCAATCCCTTTCTC
*
33137 AAAATGATCAATCC
1 AAAAGGATCAATCC
33151 ATTCCCTGAA
Statistics
Matches: 62, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 62 1.00
ACGTcount: A:0.36, C:0.23, G:0.09, T:0.32
Consensus pattern (21 bp):
AAAAGGATCAATCCCTTTCTC
Found at i:36413 original size:18 final size:18
Alignment explanation
Indices: 36387--36429 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
36377 GTACGTATCT
* *
36387 TCATTATCACTACCACTA
1 TCATCATCACCACCACTA
*
36405 TCATCATCACCATCACTA
1 TCATCATCACCACCACTA
36423 TCATCAT
1 TCATCAT
36430 TATCACTACC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.33, C:0.35, G:0.00, T:0.33
Consensus pattern (18 bp):
TCATCATCACCACCACTA
Found at i:39365 original size:18 final size:19
Alignment explanation
Indices: 39320--39367 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
39310 CCCCTACTGG
*
39320 GAGTATCGATATTCTACCCTT
1 GAGTATCGATACTCTA--CTT
39341 G-GTATCGATACTCTA-TT
1 GAGTATCGATACTCTACTT
39358 GAGTATCGAT
1 GAGTATCGAT
39368 GCAAAAAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 3 0.12
18 8 0.32
20 13 0.52
21 1 0.04
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.38
Consensus pattern (19 bp):
GAGTATCGATACTCTACTT
Found at i:40221 original size:39 final size:39
Alignment explanation
Indices: 40178--40257 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
40168 TGGATTTCTC
40178 TTCTACGCAAAATTTCTATAATAATAAATAAATATAGAA
1 TTCTACGCAAAATTTCTATAATAATAAATAAATATAGAA
40217 TTCTACGCAAAATTTCTATAATAATAAATAAATATAGAA
1 TTCTACGCAAAATTTCTATAATAATAAATAAATATAGAA
40256 TT
1 TT
40258 ATGATACTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.50, C:0.10, G:0.05, T:0.35
Consensus pattern (39 bp):
TTCTACGCAAAATTTCTATAATAATAAATAAATATAGAA
Found at i:40375 original size:16 final size:15
Alignment explanation
Indices: 40329--40380 Score: 68
Period size: 16 Copynumber: 3.3 Consensus size: 15
40319 AGAGATGATT
*
40329 TAATTTAAATTAAAA
1 TAATTTAATTTAAAA
40344 TTAATTTAATCTTAAAA
1 -TAATTTAAT-TTAAAA
40361 TAATTTAATTGTAAAA
1 TAATTTAATT-TAAAA
40377 TAAT
1 TAAT
40381 GTGAATAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
15 1 0.03
16 26 0.79
17 6 0.18
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (15 bp):
TAATTTAATTTAAAA
Found at i:51688 original size:391 final size:391
Alignment explanation
Indices: 50967--51724 Score: 1426
Period size: 391 Copynumber: 1.9 Consensus size: 391
50957 TCTAATAGGG
*
50967 CGATCATCGATCCGACTGTAGTACTACACTCGGTTGTGGCAGCAGCTCGACCTCTACGAACCCCA
1 CGATCATCGATCAGACTGTAGTACTACACTCGGTTGTGGCAGCAGCTCGACCTCTACGAACCCCA
51032 TGACTGGCTTTGTGGCAAGGATGCTAAGCTCTTCAAACAATTCATTGAGAAACGACGTGTTTCAA
66 TGACTGGCTTTGTGGCAAGGATGCTAAGCTCTTCAAACAATTCATTGAGAAACGACGTGTTTCAA
*
51097 TTTTTGTCTAGATTGACGACTACTCTCGGTGAGGTTCGTGGGCGAGTTTTGGGTGTTAAATCCCT
131 TTTTTGTCTAGATTGACGACTACTCTCGGTGAGGTTCGTGGGCGAGTTTTGGGTGTTAAACCCCT
*
51162 TCCTTTGCTTCGAGAAGTTTTTTTGGAGGTCCGTCGCAAGGAGAACCAACGTTCTCTTGTGCTTC
196 TCCATTGCTTCGAGAAGTTTTTTTGGAGGTCCGTCGCAAGGAGAACCAACGTTCTCTTGTGCTTC
*
51227 CCTCTCCGATGGTTGAGGGCTCCGCCTTAGTCGCGCATCCATCCGACGACTCTCGCCATAAGAAG
261 CCTCTCCGATGGTTGAGGGCTCCGCCTTAGTCGCGCATCCATCCAACGACTCTCGCCATAAGAAG
51292 GGTCGGCCTTGGTGCAATCATTGCAAGAAGATCAGGCATGTTCGTGATCAGTGTTGGAAAATTCA
326 GGTCGGCCTTGGTGCAATCATTGCAAGAAGATCAGGCATGTTCGTGATCAGTGTTGGAAAATTCA
51357 T
391 T
51358 CGATCATCGATCAGACTGTAGTACTACACTCGGTTGTGGCAGCAGCTCGACCTCTACGAACCCCA
1 CGATCATCGATCAGACTGTAGTACTACACTCGGTTGTGGCAGCAGCTCGACCTCTACGAACCCCA
*
51423 TGACTGGCTTTGTGGCAAGGATGCTAAGCTCTTCAAACAATTCATTGAGAAGCGACGTGTTTCAA
66 TGACTGGCTTTGTGGCAAGGATGCTAAGCTCTTCAAACAATTCATTGAGAAACGACGTGTTTCAA
51488 TTTTTGTCTAGATTGACGACTACTCTCGGTGAGGTTCGTGGGCGAGTTTTGGGTGTTAAACCCCT
131 TTTTTGTCTAGATTGACGACTACTCTCGGTGAGGTTCGTGGGCGAGTTTTGGGTGTTAAACCCCT
*
51553 TCCATTGCTTCGAGAATTTTTTTTGGAGGTCCGTCGCAAGGAGAACCAACGTTCTCTTGTGCTTC
196 TCCATTGCTTCGAGAAGTTTTTTTGGAGGTCCGTCGCAAGGAGAACCAACGTTCTCTTGTGCTTC
* *
51618 CCTCTTCGATGGTTGAGGGCTCCGCCTTAGTCGCTCATCCATCCAACGACTCTCGCCATAAGAAG
261 CCTCTCCGATGGTTGAGGGCTCCGCCTTAGTCGCGCATCCATCCAACGACTCTCGCCATAAGAAG
* *
51683 GGTCGGCCTTGGTGCGATCATTGCAAGAAGGTCAGGCATGTT
326 GGTCGGCCTTGGTGCAATCATTGCAAGAAGATCAGGCATGTT
51725 GTTCATGGGC
Statistics
Matches: 357, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
391 357 1.00
ACGTcount: A:0.21, C:0.24, G:0.25, T:0.29
Consensus pattern (391 bp):
CGATCATCGATCAGACTGTAGTACTACACTCGGTTGTGGCAGCAGCTCGACCTCTACGAACCCCA
TGACTGGCTTTGTGGCAAGGATGCTAAGCTCTTCAAACAATTCATTGAGAAACGACGTGTTTCAA
TTTTTGTCTAGATTGACGACTACTCTCGGTGAGGTTCGTGGGCGAGTTTTGGGTGTTAAACCCCT
TCCATTGCTTCGAGAAGTTTTTTTGGAGGTCCGTCGCAAGGAGAACCAACGTTCTCTTGTGCTTC
CCTCTCCGATGGTTGAGGGCTCCGCCTTAGTCGCGCATCCATCCAACGACTCTCGCCATAAGAAG
GGTCGGCCTTGGTGCAATCATTGCAAGAAGATCAGGCATGTTCGTGATCAGTGTTGGAAAATTCA
T
Found at i:52189 original size:30 final size:30
Alignment explanation
Indices: 52149--52212 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
52139 TCAAAGCCTC
* * *
52149 TCCTCTGATTCCAACCCATATACACCCTTG
1 TCCTCCGATTCCAACCCACATACACCCTAG
52179 TCCTCCGATTCCAACCCACATACACCCTAG
1 TCCTCCGATTCCAACCCACATACACCCTAG
52209 TCCT
1 TCCT
52213 TTGTCTTCCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.23, C:0.44, G:0.06, T:0.27
Consensus pattern (30 bp):
TCCTCCGATTCCAACCCACATACACCCTAG
Found at i:55817 original size:13 final size:13
Alignment explanation
Indices: 55799--55824 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
55789 GATCCTAGAG
55799 ACCTACATCAAAC
1 ACCTACATCAAAC
55812 ACCTACATCAAAC
1 ACCTACATCAAAC
55825 CGCCAACCCG
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:0.46, C:0.38, G:0.00, T:0.15
Consensus pattern (13 bp):
ACCTACATCAAAC
Found at i:57798 original size:18 final size:18
Alignment explanation
Indices: 57754--57798 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
57744 TAGATATCTT
* *
57754 AACTTTTAACTTAGTTAG
1 AACTTTTAGCTTAGCTAG
*
57772 AACTCTTAGCTTAGCTAG
1 AACTTTTAGCTTAGCTAG
*
57790 GACTTTTAG
1 AACTTTTAG
57799 TAATTTCTTG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.40
Consensus pattern (18 bp):
AACTTTTAGCTTAGCTAG
Found at i:59677 original size:24 final size:24
Alignment explanation
Indices: 59650--59721 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
59640 ATAAACGGAG
* *
59650 ATATCAGAAATTAAAACAGAATTC
1 ATATCAGAAATCAGAACAGAATTC
* *
59674 ATATCAGATATCAGAACAGAATCC
1 ATATCAGAAATCAGAACAGAATTC
*
59698 AGATCAG-AATCAGAACAGAATTC
1 ATATCAGAAATCAGAACAGAATTC
59721 A
1 A
59722 GGTAACGTAT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
23 15 0.37
24 26 0.63
ACGTcount: A:0.50, C:0.17, G:0.12, T:0.21
Consensus pattern (24 bp):
ATATCAGAAATCAGAACAGAATTC
Found at i:59681 original size:12 final size:12
Alignment explanation
Indices: 59664--59745 Score: 64
Period size: 12 Copynumber: 6.9 Consensus size: 12
59654 CAGAAATTAA
*
59664 AACAGAATTCAT
1 AACAGAATTCAG
*
59676 ATCAG-ATATCAG
1 AACAGAAT-TCAG
*
59688 AACAGAATCCAG
1 AACAGAATTCAG
*
59700 ATCAGAA-TCAG
1 AACAGAATTCAG
59711 AACAGAATTCAGG
1 AACAGAATTCA-G
*
59724 TAAC-GTA-TCAG
1 -AACAGAATTCAG
59735 AACAGAATTCA
1 AACAGAATTCA
59746 ATTCGAAAAT
Statistics
Matches: 54, Mismatches: 9, Indels: 14
0.70 0.12 0.18
Matches are distributed among these distances:
10 3 0.06
11 14 0.26
12 29 0.54
13 5 0.09
14 3 0.06
ACGTcount: A:0.46, C:0.18, G:0.16, T:0.20
Consensus pattern (12 bp):
AACAGAATTCAG
Found at i:59738 original size:24 final size:23
Alignment explanation
Indices: 59664--59745 Score: 92
Period size: 24 Copynumber: 3.5 Consensus size: 23
59654 CAGAAATTAA
* *
59664 AACAGAATTCATATCAGATATCAG
1 AACAGAATTCAGATAAG-TATCAG
* * *
59688 AACAGAATCCAGATCAGAATCAG
1 AACAGAATTCAGATAAGTATCAG
*
59711 AACAGAATTCAGGTAACGTATCAG
1 AACAGAATTCAGATAA-GTATCAG
59735 AACAGAATTCA
1 AACAGAATTCA
59746 ATTCGAAAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
23 18 0.36
24 32 0.64
ACGTcount: A:0.46, C:0.18, G:0.16, T:0.20
Consensus pattern (23 bp):
AACAGAATTCAGATAAGTATCAG
Found at i:65557 original size:44 final size:46
Alignment explanation
Indices: 65484--65588 Score: 105
Period size: 44 Copynumber: 2.4 Consensus size: 46
65474 TTTAAACATC
* * * *
65484 TTTACTAA-AATATTA-TTAGATTAATATTAAATACATAA-ATAATA
1 TTTATTAATAATATTATTTAGATGAATATT-AATAAATAACATAAAA
* *
65528 -TTATTCATAATATTATTTATATGAA-ATTAATAAATAACATAAAA
1 TTTATTAATAATATTATTTAGATGAATATTAATAAATAACATAAAA
65572 TTTATTAATAAT-TTATT
1 TTTATTAATAATATTATT
65589 AAATATTATT
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
43 13 0.26
44 20 0.40
45 17 0.34
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.45
Consensus pattern (46 bp):
TTTATTAATAATATTATTTAGATGAATATTAATAAATAACATAAAA
Found at i:65652 original size:22 final size:23
Alignment explanation
Indices: 65624--65702 Score: 65
Period size: 22 Copynumber: 3.5 Consensus size: 23
65614 GATCTTTTAT
*
65624 TATTATAATGTTAAAAATA-TAA
1 TATTATAATATTAAAAATATTAA
* *
65646 TATTATATTATTAGAAATATTAA
1 TATTATAATATTAAAAATATTAA
* * *
65669 TA-AATATATTTTAAAAATTTTAA
1 TATTATA-ATATTAAAAATATTAA
*
65692 TAAT-TAATATT
1 TATTATAATATT
65703 TTTATTAAAA
Statistics
Matches: 44, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
22 23 0.52
23 21 0.48
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.47
Consensus pattern (23 bp):
TATTATAATATTAAAAATATTAA
Found at i:65657 original size:30 final size:32
Alignment explanation
Indices: 65603--65676 Score: 80
Period size: 32 Copynumber: 2.3 Consensus size: 32
65593 ATTATTAAAA
* * * *
65603 TAAAAATATAAGATCTTTTATTATTA-TAATGT
1 TAAAAATAT-AGATATTATATTATTAGAAATAT
65635 TAAAAATATA-ATATTATATTATTAGAAATAT
1 TAAAAATATAGATATTATATTATTAGAAATAT
65666 TAATAAATATA
1 TAA-AAATATA
65677 TTTTAAAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
30 12 0.33
31 8 0.22
32 16 0.44
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.43
Consensus pattern (32 bp):
TAAAAATATAGATATTATATTATTAGAAATAT
Found at i:65686 original size:23 final size:23
Alignment explanation
Indices: 65625--65704 Score: 83
Period size: 23 Copynumber: 3.4 Consensus size: 23
65615 ATCTTTTATT
*
65625 ATTATAATGTTAAAAATA-TAAT-
1 ATTAT-ATTTTAAAAATATTAATA
*
65647 ATTATATTATTAGAAATATTAATA
1 ATTATATT-TTAAAAATATTAATA
* *
65671 AATATATTTTAAAAATTTTAATA
1 ATTATATTTTAAAAATATTAATA
65694 ATTAATATTTT
1 ATT-ATATTTT
65705 TATTAAAATT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
21 2 0.04
22 13 0.27
23 19 0.40
24 14 0.29
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (23 bp):
ATTATATTTTAAAAATATTAATA
Found at i:67559 original size:222 final size:223
Alignment explanation
Indices: 67163--67629 Score: 749
Period size: 222 Copynumber: 2.1 Consensus size: 223
67153 AATGGAATTG
* *
67163 GAAATCCGACCCGACTCAACCCGAATATCACACTTAAAAAACCCGACCCGACCCGAACAAAATAA
1 GAAA-CCGACCCGACCCGACCCGAATATCACACTTAAAAAA--C-ACCCGACCCGAACAAAATAA
* **
67228 AGTTTCATCCGACCTGACCCGAATATATGAATTAGAAATCTGACCCGACCCGACACGAAATAATA
62 AGTTTCATCCGACCCGACCCGAATATATGAATTAGAAATCCAACCCGACCCGACACGAAATAATA
67293 AAAAAATATTTTTATTTAATAAAAACAATGACTTAATCCGACCCGACCCGAATTATATATATATT
127 AAAAAATATTTTTATTTAATAAAAACAATGACTTAATCCGACCCGACCCGAATTATATATAT-TT
* * *
67358 TTCGGGTTGGTCCGGTTTTTTCACCCTAAACCC
191 TTCGGATCGGTCCGATTTTTTCACCCTAAACCC
*
67391 GAAACCGACCCGACCCGACCTGAATATCACACTT-AAAAA-ACCCGACCCGAACAAAATAAAGTT
1 GAAACCGACCCGACCCGACCCGAATATCACACTTAAAAAACACCCGACCCGAACAAAATAAAGTT
*
67454 TCATCCGACCCGACCCGAATATATGAATTAGAAATCCAACCCGACCCGACCCGAAATAATAAAAA
66 TCATCCGACCCGACCCGAATATATGAATTAGAAATCCAACCCGACCCGACACGAAATAATAAAAA
* * *
67519 ATTATTTTTATTTAATAAAAACAGTGACTTAATCCGACCCGACCTGAATTATATATATTTTTCGG
131 AATATTTTTATTTAATAAAAACAATGACTTAATCCGACCCGACCCGAATTATATATATTTTTCGG
67584 ATCGGTCCGATTTTTTCACCCTAAACCC
196 ATCGGTCCGATTTTTTCACCCTAAACCC
*
67612 GAACCCGACCCGACCCGA
1 GAAACCGACCCGACCCGA
67630 ATATATGAAT
Statistics
Matches: 225, Mismatches: 14, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
221 49 0.22
222 140 0.62
226 5 0.02
227 27 0.12
228 4 0.02
ACGTcount: A:0.37, C:0.28, G:0.12, T:0.23
Consensus pattern (223 bp):
GAAACCGACCCGACCCGACCCGAATATCACACTTAAAAAACACCCGACCCGAACAAAATAAAGTT
TCATCCGACCCGACCCGAATATATGAATTAGAAATCCAACCCGACCCGACACGAAATAATAAAAA
AATATTTTTATTTAATAAAAACAATGACTTAATCCGACCCGACCCGAATTATATATATTTTTCGG
ATCGGTCCGATTTTTTCACCCTAAACCC
Found at i:69788 original size:64 final size:64
Alignment explanation
Indices: 69720--69875 Score: 181
Period size: 64 Copynumber: 2.4 Consensus size: 64
69710 GAATAAATTG
* *** * * * *
69720 AACATCAAATGCATTTCATGCATCGATGCACTCTCTATGCATC-GATGCACT-TGGGTTTTATTA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCAATGCA-CAGATGCACTCAGGCTATT-TTA
69783 A
64 A
* *
69784 AACATCGAATGCGTTTCATGCATCGATGCACAAGCAATGCACAGATGCACTCAGGCTATTTTCA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCAATGCACAGATGCACTCAGGCTATTTTAA
*
69848 AACATCGAATGCATTTTATGCATCGATG
1 AACATCGAATGCATTTCATGCATCGATG
69876 AACACTTGGT
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
63 1 0.01
64 72 0.92
65 5 0.06
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.30
Consensus pattern (64 bp):
AACATCGAATGCATTTCATGCATCGATGCACAAGCAATGCACAGATGCACTCAGGCTATTTTAA
Found at i:72595 original size:29 final size:30
Alignment explanation
Indices: 72526--72584 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
72516 AATTTAAGGT
72526 AAAATGGTTTTTGGACTTGAATTGAATTTAC
1 AAAAT-GTTTTTGGACTTGAATTGAATTTAC
*
72557 AAAATATTTTTGGACTT-AATTGAATTTA
1 AAAATGTTTTTGGACTTGAATTGAATTTA
72585 TTCAAAGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 11 0.41
30 11 0.41
31 5 0.19
ACGTcount: A:0.36, C:0.05, G:0.15, T:0.44
Consensus pattern (30 bp):
AAAATGTTTTTGGACTTGAATTGAATTTAC
Found at i:72710 original size:12 final size:12
Alignment explanation
Indices: 72690--72768 Score: 52
Period size: 12 Copynumber: 6.2 Consensus size: 12
72680 TGCACTAATG
*
72690 CATCGATGCATC
1 CATCCATGCATC
72702 CATCCATGCATC
1 CATCCATGCATC
* *
72714 GATGCATCCATCCATG
1 ----CATCCATGCATC
* *
72730 CATCGATGCATG
1 CATCCATGCATC
*
72742 CATCGATGCATC
1 CATCCATGCATC
72754 C-TGCCATGCATC
1 CAT-CCATGCATC
72766 CAT
1 CAT
72769 GCGTCAAGGC
Statistics
Matches: 54, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
11 1 0.02
12 42 0.78
13 1 0.02
16 10 0.19
ACGTcount: A:0.24, C:0.34, G:0.16, T:0.25
Consensus pattern (12 bp):
CATCCATGCATC
Found at i:72742 original size:32 final size:32
Alignment explanation
Indices: 72690--72770 Score: 119
Period size: 32 Copynumber: 2.5 Consensus size: 32
72680 TGCACTAATG
* *
72690 CATCGATGCATCCATCCATGCATCGATGCATC
1 CATCCATGCATCCATGCATGCATCGATGCATC
*
72722 CATCCATGCATCGATGCATGCATCGATGCATC
1 CATCCATGCATCCATGCATGCATCGATGCATC
72754 C-TGCCATGCATCCATGC
1 CAT-CCATGCATCCATGC
72771 GTCAAGGCTG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
31 1 0.02
32 43 0.98
ACGTcount: A:0.23, C:0.35, G:0.17, T:0.25
Consensus pattern (32 bp):
CATCCATGCATCCATGCATGCATCGATGCATC
Found at i:72770 original size:20 final size:20
Alignment explanation
Indices: 72687--72770 Score: 116
Period size: 20 Copynumber: 4.2 Consensus size: 20
72677 ACCTGCACTA
*
72687 ATGCATCGATGCATCCATCC
1 ATGCATCGATGCATGCATCC
*
72707 ATGCATCGATGCATCCATCC
1 ATGCATCGATGCATGCATCC
*
72727 ATGCATCGATGCATGCATCG
1 ATGCATCGATGCATGCATCC
*
72747 ATGCATC-CTGCCATGCATCC
1 ATGCATCGATG-CATGCATCC
72767 ATGC
1 ATGC
72771 GTCAAGGCTG
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
19 2 0.03
20 57 0.97
ACGTcount: A:0.24, C:0.33, G:0.18, T:0.25
Consensus pattern (20 bp):
ATGCATCGATGCATGCATCC
Found at i:72922 original size:20 final size:22
Alignment explanation
Indices: 72884--72923 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
72874 TTTGAGTAGA
72884 AAAATCATCCCCAAACGGCTCC
1 AAAATCATCCCCAAACGGCTCC
72906 AAAA-CATCCCC-AACGGCT
1 AAAATCATCCCCAAACGGCT
72924 ATATACAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.38, C:0.40, G:0.10, T:0.12
Consensus pattern (22 bp):
AAAATCATCCCCAAACGGCTCC
Found at i:73181 original size:34 final size:32
Alignment explanation
Indices: 73138--73207 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
73128 TTTTGTAAAG
* *
73138 GGGAAAGGTTCTAGCTTATCCCGTATAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCGGA-AAAA-CTA
*
73172 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
73204 GGGA
1 GGGA
73208 GTTGTAAGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 7 0.21
33 4 0.12
34 22 0.67
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.23
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:75300 original size:9 final size:8
Alignment explanation
Indices: 75272--75298 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
75262 TGATGAACAT
75272 TTTAATGA
1 TTTAATGA
75280 TTTAATGA
1 TTTAATGA
75288 TTTAATGA
1 TTTAATGA
75296 TTT
1 TTT
75299 TACATAATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (8 bp):
TTTAATGA
Found at i:76105 original size:29 final size:30
Alignment explanation
Indices: 76035--76094 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 30
76025 CAATTTAAGG
76035 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAAT-GTTTTTGGACTTGAATTGAATTTA
*
76066 CAAAATATTTTTGGACTT-AATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
76095 TTCAAAGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 11 0.39
31 6 0.21
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.43
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTGAATTTA
Found at i:76200 original size:21 final size:21
Alignment explanation
Indices: 76174--76229 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
76164 AGGGTGTCAA
76174 AGTGCATCCATGCATCCCTAC
1 AGTGCATCCATGCATCCCTAC
*
76195 AGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCATCCCTAC
76216 AGTGCATCCATGCA
1 AGTGCATCCATGCA
76230 CTCAAACATC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (21 bp):
AGTGCATCCATGCATCCCTAC
Found at i:76281 original size:20 final size:20
Alignment explanation
Indices: 76252--76305 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
76242 ATGCACTTAG
*
76252 TGCATTGATGCATCCAGCCA
1 TGCATCGATGCATCCAGCCA
* *
76272 TGCATCGATGTATCCTGCCA
1 TGCATCGATGCATCCAGCCA
* *
76292 TACATCCATGCATC
1 TGCATCGATGCATC
76306 AAGGCTACAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.28
Consensus pattern (20 bp):
TGCATCGATGCATCCAGCCA
Found at i:76445 original size:21 final size:21
Alignment explanation
Indices: 76416--76455 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
76406 TTTGAGTAGA
76416 AAAATCATCTCCAAACGGCTCC
1 AAAATCATC-CCAAACGGCTCC
*
76438 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCAAACGGCT
76456 ATATACAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 4 0.24
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCAAACGGCTCC
Found at i:76709 original size:34 final size:32
Alignment explanation
Indices: 76670--76739 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
76660 TTTTGTAAAG
* *
76670 GGGAAAGGTTCTAGCTTATCCCGTATAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-A-AAAAACTA
*
76704 GGGAAAGGTTCTAGTTTAGCCCGAAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGAAAAAACTA
76736 GGGA
1 GGGA
76740 GTTGTAAGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 11 0.33
33 1 0.03
34 21 0.64
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.23
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGAAAAAACTA
Found at i:80222 original size:44 final size:44
Alignment explanation
Indices: 80167--80263 Score: 117
Period size: 44 Copynumber: 2.2 Consensus size: 44
80157 TTGAGCTTAA
* *
80167 TGCATCGATACACCTAACAG-TGCACTGATGCATC-CCTTTGAATG
1 TGCATCGATACACC-AACAGATGCACCGATGCA-CGCCCTTGAATG
* * *
80211 TGCATCGATACATCAGCTGATGCACCGATGCACGCCCTTGAATG
1 TGCATCGATACACCAACAGATGCACCGATGCACGCCCTTGAATG
80255 TGCATCGAT
1 TGCATCGAT
80264 GCACAAGAGC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
43 4 0.09
44 42 0.91
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (44 bp):
TGCATCGATACACCAACAGATGCACCGATGCACGCCCTTGAATG
Found at i:80281 original size:21 final size:21
Alignment explanation
Indices: 80255--80308 Score: 108
Period size: 21 Copynumber: 2.6 Consensus size: 21
80245 CCCTTGAATG
80255 TGCATCGATGCACAAGAGCCA
1 TGCATCGATGCACAAGAGCCA
80276 TGCATCGATGCACAAGAGCCA
1 TGCATCGATGCACAAGAGCCA
80297 TGCATCGATGCA
1 TGCATCGATGCA
80309 TCCGTCGGGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.31, C:0.28, G:0.24, T:0.17
Consensus pattern (21 bp):
TGCATCGATGCACAAGAGCCA
Found at i:82524 original size:21 final size:21
Alignment explanation
Indices: 82498--82548 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
82488 ATTTAACAAA
82498 AAGGGGGAGAAGTGTTATAGT
1 AAGGGGGAGAAGTGTTATAGT
*
82519 AAGGGGTAGAAGTGTTATAGT
1 AAGGGGGAGAAGTGTTATAGT
82540 AAGGGGGAG
1 AAGGGGGAG
82549 TAATAGTAAT
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:0.33, C:0.00, G:0.45, T:0.22
Consensus pattern (21 bp):
AAGGGGGAGAAGTGTTATAGT
Found at i:82979 original size:64 final size:63
Alignment explanation
Indices: 82903--83089 Score: 171
Period size: 64 Copynumber: 2.9 Consensus size: 63
82893 GCATCAATCC
**
82903 ATGCATCGATGCACCATT-GAATAAATTGAACATCGAATGCATTTCATGCATCGATGCACTCTCT
1 ATGCATCGATGCA-C-TTGGAATAAATAAAACATCGAATGCATTTCATGCATCGATGCACTCTCT
** * * *** *
82967 ATGCATCGATGCACTTGGGTTTTACTAAAACATCGAATGCATTTCATGCATCGATGCACAAGCA
1 ATGCATCGATGCACTT-GGAATAAATAAAACATCGAATGCATTTCATGCATCGATGCACTCTCT
* * ** * *
83031 ATGCACCGATGCACTCTGG-CTATTTTCAAACATCGAATGCATTTTATGCATCGATGCAC
1 ATGCATCGATGCACT-TGGAATA-AATAAAACATCGAATGCATTTCATGCATCGATGCAC
83090 ACTTGGTGCA
Statistics
Matches: 102, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
62 2 0.02
63 2 0.02
64 97 0.95
65 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (63 bp):
ATGCATCGATGCACTTGGAATAAATAAAACATCGAATGCATTTCATGCATCGATGCACTCTCT
Found at i:83100 original size:64 final size:62
Alignment explanation
Indices: 82931--83109 Score: 218
Period size: 64 Copynumber: 2.8 Consensus size: 62
82921 GAATAAATTG
* * *
82931 AACATCGAATGCATTTCATGCATCGATGCACTCTCTATGCATCGATGCACTTGGGTTTTACTAA
1 AACATCGAATGCATTTCATGCATCGATGCACACT-TATGCACCGATGCACTTGGCTTTTA-TAA
* *
82995 AACATCGAATGCATTTCATGCATCGATGCACAAGC-AATGCACCGATGCACTCTGGCTATTT-TC
1 AACATCGAATGCATTTCATGCATCGATGCAC-A-CTTATGCACCGATGCACT-TGGCT-TTTATA
83058 A
62 A
* *
83059 AACATCGAATGCATTTTATGCATCGATGCACACTTGGTGCACCGATGCACT
1 AACATCGAATGCATTTCATGCATCGATGCACACTT-ATGCACCGATGCACT
83110 AAGTGTTCCA
Statistics
Matches: 101, Mismatches: 8, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
62 1 0.01
63 1 0.01
64 91 0.90
65 4 0.04
66 4 0.04
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (62 bp):
AACATCGAATGCATTTCATGCATCGATGCACACTTATGCACCGATGCACTTGGCTTTTATAA
Found at i:87174 original size:32 final size:32
Alignment explanation
Indices: 87138--87218 Score: 108
Period size: 32 Copynumber: 2.5 Consensus size: 32
87128 TTGATGTTCA
*
87138 TGTGCATTATCTGAATGCAACGCTAACTCTGT
1 TGTGCATTATCTGAATACAACGCTAACTCTGT
* * * *
87170 TGTGCATTATCTAAATACAATGTTAACTTTGT
1 TGTGCATTATCTGAATACAACGCTAACTCTGT
*
87202 TTTGCATTATCTGAATA
1 TGTGCATTATCTGAATA
87219 TGATATTGAT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.41
Consensus pattern (32 bp):
TGTGCATTATCTGAATACAACGCTAACTCTGT
Found at i:88525 original size:21 final size:20
Alignment explanation
Indices: 88456--88530 Score: 73
Period size: 21 Copynumber: 3.7 Consensus size: 20
88446 AATGGGGCCT
*
88456 CAGTATCGATATCATTACCTTG
1 CAGTATCGATA-C-TCACCTTG
**
88478 -AGTATCGATACTGTCC-TG
1 CAGTATCGATACTCACCTTG
*
88496 CAATATCGATACTCACCTTGG
1 CAGTATCGATACTCACCTT-G
88517 CAGTATCGATACTC
1 CAGTATCGATACTC
88531 CTGTCTGAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
18 2 0.05
19 16 0.36
20 2 0.05
21 24 0.55
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (20 bp):
CAGTATCGATACTCACCTTG
Found at i:90948 original size:27 final size:27
Alignment explanation
Indices: 90908--90959 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
90898 CTTGAGCTAC
90908 CAAGGATAGAACCAAGGTCCACATTTA
1 CAAGGATAGAACCAAGGTCCACATTTA
* **
90935 CAAGGATAGTACCACTGTCCACATT
1 CAAGGATAGAACCAAGGTCCACATT
90960 GGTCCGACCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.21
Consensus pattern (27 bp):
CAAGGATAGAACCAAGGTCCACATTTA
Found at i:91431 original size:2 final size:2
Alignment explanation
Indices: 91424--91448 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
91414 TTATGTTTAT
91424 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
91449 TCAGAATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:93602 original size:16 final size:16
Alignment explanation
Indices: 93581--93621 Score: 82
Period size: 16 Copynumber: 2.6 Consensus size: 16
93571 TTCCGTCAAA
93581 CGGTTCGTTGAACGTT
1 CGGTTCGTTGAACGTT
93597 CGGTTCGTTGAACGTT
1 CGGTTCGTTGAACGTT
93613 CGGTTCGTT
1 CGGTTCGTT
93622 TACATGCTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.10, C:0.20, G:0.32, T:0.39
Consensus pattern (16 bp):
CGGTTCGTTGAACGTT
Found at i:95252 original size:21 final size:22
Alignment explanation
Indices: 95215--95266 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
95205 AAATTACCCT
*
95215 AGTATCTATA-CTCCTA-CTTGG
1 AGTATCGATACCTCCTACCTT-G
95236 AGTATCGATACCT-CTACCTTG
1 AGTATCGATACCTCCTACCTTG
95257 -GTATCGATAC
1 AGTATCGATAC
95267 TATATGTGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 10 0.36
21 13 0.46
22 5 0.18
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (22 bp):
AGTATCGATACCTCCTACCTTG
Found at i:96536 original size:10 final size:11
Alignment explanation
Indices: 96496--96552 Score: 57
Period size: 12 Copynumber: 5.2 Consensus size: 11
96486 GTAAAACGGT
96496 CGACTGTTGAC
1 CGACTGTTGAC
96507 CTGACTGTTGAC
1 C-GACTGTTGAC
*
96519 CGGC-GTTGAC
1 CGACTGTTGAC
96529 C-ACTGTTGAC
1 CGACTGTTGAC
96539 CAGAACT-TTGAC
1 C-G-ACTGTTGAC
96551 CG
1 CG
96553 GTGTTGAACG
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
9 1 0.03
10 14 0.36
11 4 0.10
12 17 0.44
13 3 0.08
ACGTcount: A:0.19, C:0.28, G:0.26, T:0.26
Consensus pattern (11 bp):
CGACTGTTGAC
Found at i:96539 original size:32 final size:32
Alignment explanation
Indices: 96498--96559 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
96488 AAAACGGTCG
*
96498 ACTGTTGACCTG-ACTGTTGACCGGCGTTGACC
1 ACTGTTGACCAGAACT-TTGACCGGCGTTGACC
*
96530 ACTGTTGACCAGAACTTTGACCGGTGTTGA
1 ACTGTTGACCAGAACTTTGACCGGCGTTGA
96560 ACGACCTTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 24 0.89
33 3 0.11
ACGTcount: A:0.19, C:0.24, G:0.27, T:0.29
Consensus pattern (32 bp):
ACTGTTGACCAGAACTTTGACCGGCGTTGACC
Found at i:98939 original size:24 final size:24
Alignment explanation
Indices: 98912--98976 Score: 112
Period size: 24 Copynumber: 2.7 Consensus size: 24
98902 TCCGATTTGA
*
98912 ATTCTGTTATGATACTTGACATGG
1 ATTCTGATATGATACTTGACATGG
98936 ATTCTGATATGATACTTGACATGG
1 ATTCTGATATGATACTTGACATGG
*
98960 ATTTTGATATGATACTT
1 ATTCTGATATGATACTT
98977 AACCTGAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.28, C:0.11, G:0.18, T:0.43
Consensus pattern (24 bp):
ATTCTGATATGATACTTGACATGG
Found at i:107815 original size:3 final size:3
Alignment explanation
Indices: 107807--107852 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
107797 TTTAGTCCCG
107807 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
107853 CTACTACTAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:109778 original size:65 final size:63
Alignment explanation
Indices: 109657--109866 Score: 208
Period size: 65 Copynumber: 3.3 Consensus size: 63
109647 TTTTTCAGAG
* * * * * **
109657 TGATGCACCGATGCACCAATCCATGCATCGATGCACCATGAATTAAATTG-AACATCGAATGCAT
1 TGATGCATCGATGCA-CAA-CCATGCACCGATGCACTAAGGA-TATTTTGAAACATCGAATGCAT
109721 T
63 T
* *
109722 TCATACATCGATGCACATACCATGCACCGATGCACTAAGGAT-TTTATGAAAACATCGAATGCAT
1 TGATGCATCGATGCACA-ACCATGCACCGATGCACTAAGGATATTT-TG-AAACATCGAATGCAT
109786 T
63 T
* * ** * *
109787 TGATGCATCGATGCACCAGCCATGCATCGATGCACTCTGGCTATTTTGAAACATCGAATGCACT
1 TGATGCATCGATGCA-CAACCATGCACCGATGCACTAAGGATATTTTGAAACATCGAATGCATT
109851 TGATGCATCGATGCAC
1 TGATGCATCGATGCAC
109867 TCTTAGTGCA
Statistics
Matches: 122, Mismatches: 17, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
62 1 0.01
63 4 0.03
64 50 0.41
65 62 0.51
66 5 0.04
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (63 bp):
TGATGCATCGATGCACAACCATGCACCGATGCACTAAGGATATTTTGAAACATCGAATGCATT
Found at i:118319 original size:62 final size:65
Alignment explanation
Indices: 118195--118348 Score: 183
Period size: 62 Copynumber: 2.4 Consensus size: 65
118185 TAAATTGAAT
* * *
118195 ATCGAATGCATTTCATGCATCGATGCA-CATACCATGCACCGATGCACTGAGGATTTTATGAAAC
1 ATCGAATGCACTTGATGCATCGATGCACCATACCATGCACCGATGCACTCAGGATTTTATGAAAC
* * * * * *
118259 ATC-AATGTATTTGA-GCATCGATGCACCA-GCCATGCATCGATGCACTCTGGCTATTT-TGAAA
1 ATCGAATGCACTTGATGCATCGATGCACCATACCATGCACCGATGCACTCAGGAT-TTTATGAAA
118320 C
65 C
118321 ATCGAATGCACTTGATGCATCGATGCAC
1 ATCGAATGCACTTGATGCATCGATGCAC
118349 TCTTAGTGCA
Statistics
Matches: 77, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
62 39 0.51
63 23 0.30
64 15 0.19
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.27
Consensus pattern (65 bp):
ATCGAATGCACTTGATGCATCGATGCACCATACCATGCACCGATGCACTCAGGATTTTATGAAAC
Found at i:118348 original size:17 final size:19
Alignment explanation
Indices: 118320--118368 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
118310 TATTTTGAAA
118320 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
118338 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
118357 CACCGATGCACT
1 CATCGATGCACT
118369 AAGGTAACGG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Done.