Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005129.1 Hibiscus syriacus cultivar Beakdansim tig00011547_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: 545926
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
File 1 of 3
Found at i:456 original size:17 final size:17
Alignment explanation
Indices: 434--467 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
424 TAAATTACAT
*
434 CTTTCATCCATCAACTA
1 CTTTCATCAATCAACTA
451 CTTTCATCAATCAACTA
1 CTTTCATCAATCAACTA
468 TCTTCTCACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.35
Consensus pattern (17 bp):
CTTTCATCAATCAACTA
Found at i:1499 original size:20 final size:21
Alignment explanation
Indices: 1468--1513 Score: 85
Period size: 20 Copynumber: 2.2 Consensus size: 21
1458 TTGCCACCAA
1468 AAGGTGATTACCCATTCTTTG
1 AAGGTGATTACCCATTCTTTG
1489 AAGGT-ATTACCCATTCTTTG
1 AAGGTGATTACCCATTCTTTG
1509 AAGGT
1 AAGGT
1514 TCCAGAGAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 20 0.80
21 5 0.20
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (21 bp):
AAGGTGATTACCCATTCTTTG
Found at i:8255 original size:48 final size:48
Alignment explanation
Indices: 8176--8270 Score: 111
Period size: 48 Copynumber: 2.0 Consensus size: 48
8166 TCAGATCTGA
* * *
8176 TCATTTCATGTTTCGGTTTTATTCAAATCTATTGTAAGT-TGGGTCGGG
1 TCATTTCAGGTTTCAGTTTTATTCAAATCTATAGTAAGTCT-GGTCGGG
* ** *
8224 TCATTTCGGGTTTCAGTTTTATTTTAGTCTATAGTAAGTCTGGTCGG
1 TCATTTCAGGTTTCAGTTTTATTCAAATCTATAGTAAGTCTGGTCGG
8271 TTTGAATATC
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
48 38 0.97
49 1 0.03
ACGTcount: A:0.18, C:0.13, G:0.23, T:0.46
Consensus pattern (48 bp):
TCATTTCAGGTTTCAGTTTTATTCAAATCTATAGTAAGTCTGGTCGGG
Found at i:16807 original size:24 final size:24
Alignment explanation
Indices: 16778--16874 Score: 167
Period size: 24 Copynumber: 4.0 Consensus size: 24
16768 AACGATTCAT
*
16778 CTGGAAGAAACAGTTATGTCAGCA
1 CTGGAAGAAACAGTCATGTCAGCA
16802 CTGGAAGAAACAGTCATGTCAGCA
1 CTGGAAGAAACAGTCATGTCAGCA
16826 CTGGAAGAAACAGTCATGTCAGCA
1 CTGGAAGAAACAGTCATGTCAGCA
* *
16850 CTGGAAGAAGCAGTCATGGCAGCA
1 CTGGAAGAAACAGTCATGTCAGCA
16874 C
1 C
16875 AATTACCCTC
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 70 1.00
ACGTcount: A:0.36, C:0.21, G:0.27, T:0.16
Consensus pattern (24 bp):
CTGGAAGAAACAGTCATGTCAGCA
Found at i:20411 original size:15 final size:14
Alignment explanation
Indices: 20393--20444 Score: 56
Period size: 14 Copynumber: 3.8 Consensus size: 14
20383 CAATTATTTT
20393 TTTATTAAATATTCA
1 TTTATT-AATATTCA
20408 TTTATTCAA-ATT--
1 TTTATT-AATATTCA
20420 TTTATTAATATTCA
1 TTTATTAATATTCA
*
20434 TTTATTCATAT
1 TTTATTAATAT
20445 ATATATATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
11 2 0.06
12 9 0.28
14 13 0.41
15 8 0.25
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.58
Consensus pattern (14 bp):
TTTATTAATATTCA
Found at i:20429 original size:26 final size:27
Alignment explanation
Indices: 20391--20441 Score: 95
Period size: 26 Copynumber: 1.9 Consensus size: 27
20381 GTCAATTATT
20391 TTTTTATTAAATATTCATTTATTCAAA
1 TTTTTATTAAATATTCATTTATTCAAA
20418 TTTTTATT-AATATTCATTTATTCA
1 TTTTTATTAAATATTCATTTATTCA
20442 TATATATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (27 bp):
TTTTTATTAAATATTCATTTATTCAAA
Found at i:20456 original size:26 final size:26
Alignment explanation
Indices: 20395--20459 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 26
20385 ATTATTTTTT
* *
20395 TATTAAATATTCATTTATTCAAATTTT
1 TATT-AATATTCATTTATTCAAATATA
*
20422 TATTAATATTCATTTATTCATATATA
1 TATTAATATTCATTTATTCAAATATA
20448 TATATATATATT
1 TAT-TA-ATATT
20460 ACATGATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 22 0.67
27 6 0.18
28 5 0.15
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.55
Consensus pattern (26 bp):
TATTAATATTCATTTATTCAAATATA
Found at i:20682 original size:21 final size:22
Alignment explanation
Indices: 20642--20683 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
20632 ATTACATATT
20642 AAAATAATAAAAAATATAAATC
1 AAAATAATAAAAAATATAAATC
20664 AAAAT-ATCAAAAAAT-TAAAT
1 AAAATAAT-AAAAAATATAAAT
20684 AAGATGTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (22 bp):
AAAATAATAAAAAATATAAATC
Found at i:21923 original size:3 final size:3
Alignment explanation
Indices: 21915--21974 Score: 111
Period size: 3 Copynumber: 20.0 Consensus size: 3
21905 TTTTTACCCA
*
21915 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
21963 TAT TAT TAT TAT
1 TAT TAT TAT TAT
21975 ATATATTAAA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:23426 original size:13 final size:13
Alignment explanation
Indices: 23410--23456 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
23400 ATATAATAAA
23410 TAAATATTTATTT
1 TAAATATTTATTT
*
23423 TAAATAAATTATTT
1 TAAAT-ATTTATTT
23437 T-AATATTTAGTTT
1 TAAATATTTA-TTT
*
23450 TCAATAT
1 TAAATAT
23457 CAAAGAACAG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
12 4 0.14
13 12 0.41
14 13 0.45
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (13 bp):
TAAATATTTATTT
Found at i:34786 original size:9 final size:9
Alignment explanation
Indices: 34772--34837 Score: 80
Period size: 9 Copynumber: 7.0 Consensus size: 9
34762 ATTATGCTTG
*
34772 AAGAAAAGA
1 AAGAAAAAA
34781 AAGAAAAAAA
1 AAG-AAAAAA
34791 AAGAAAAAA
1 AAGAAAAAA
34800 AAGGAAAAAA
1 AA-GAAAAAA
34810 AAGAAAAAA
1 AAGAAAAAA
34819 GAA-AAAAAA
1 -AAGAAAAAA
34828 AGAGAAAAAA
1 A-AGAAAAAA
34838 TGGGGGGTCA
Statistics
Matches: 51, Mismatches: 1, Indels: 9
0.84 0.02 0.15
Matches are distributed among these distances:
8 1 0.02
9 25 0.49
10 25 0.49
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (9 bp):
AAGAAAAAA
Found at i:34793 original size:10 final size:10
Alignment explanation
Indices: 34775--34837 Score: 76
Period size: 10 Copynumber: 6.5 Consensus size: 10
34765 ATGCTTGAAG
*
34775 AAAAGAAAGA
1 AAAAAAAAGA
34785 AAAAAAAAG-
1 AAAAAAAAGA
*
34794 AAAAAAAAGG
1 AAAAAAAAGA
34804 AAAAAAAAGA
1 AAAAAAAAGA
*
34814 AAAAAGAA-A
1 AAAAAAAAGA
*
34823 AAAAAAGAGA
1 AAAAAAAAGA
34833 AAAAA
1 AAAAA
34838 TGGGGGGTCA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
9 16 0.35
10 30 0.65
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:34796 original size:19 final size:18
Alignment explanation
Indices: 34772--34837 Score: 89
Period size: 19 Copynumber: 3.6 Consensus size: 18
34762 ATTATGCTTG
34772 AAGAAAAGAAAGAAAAAAA
1 AAGAAAA-AAAGAAAAAAA
*
34791 AAGAAAAAAAAGGAAAAAA
1 AAG-AAAAAAAGAAAAAAA
34810 AAG-AAAAAAGAAAAAAA
1 AAGAAAAAAAGAAAAAAA
34827 AAGAGAAAAAA
1 AAGA-AAAAAA
34838 TGGGGGGTCA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
17 16 0.38
19 22 0.52
20 4 0.10
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (18 bp):
AAGAAAAAAAGAAAAAAA
Found at i:34823 original size:26 final size:26
Alignment explanation
Indices: 34775--34837 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
34765 ATGCTTGAAG
*
34775 AAAAG-AAAGAAA-AAAAAAGAAAAA
1 AAAAGAAAAAAAAGAAAAAAGAAAAA
*
34799 AAAGGAAAAAAAAGAAAAAAGAAAAA
1 AAAAGAAAAAAAAGAAAAAAGAAAAA
*
34825 AAAAGAGAAAAAA
1 AAAAGAAAAAAAA
34838 TGGGGGGTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 4 0.12
25 6 0.18
26 23 0.70
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (26 bp):
AAAAGAAAAAAAAGAAAAAAGAAAAA
Found at i:36450 original size:83 final size:83
Alignment explanation
Indices: 35960--36452 Score: 862
Period size: 83 Copynumber: 5.9 Consensus size: 83
35950 ATATCCTAGT
*
35960 CCAATCATTGAATTTAGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
1 CCAATCATTGAATTTAGAAGATGAATGTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
* *
36025 TGATCTGGTTAGACAGAA
66 TGATCTGGTTTGGCAGAA
36043 CCAATCATTGAATTTAGAAGATGAATGTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
1 CCAATCATTGAATTTAGAAGATGAATGTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
*
36108 TGATCTGGTTTAGCAGAA
66 TGATCTGGTTTGGCAGAA
* *
36126 CCAATCATTGAATTTGGAAGATGAATGTGTTCATAACATCTTCTGGAAGTGTTCTTTGAGTTATC
1 CCAATCATTGAATTTAGAAGATGAATGTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
* *
36191 TGATCTGGTTAGACAGAA
66 TGATCTGGTTTGGCAGAA
36209 CCAATCATTGAATTTAGAAGATGAATGTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
1 CCAATCATTGAATTTAGAAGATGAATGTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
*
36274 TGATCTGGTTTAGCAGAA
66 TGATCTGGTTTGGCAGAA
* *
36292 CCAATCATTGAATTTGGAAGATGAATGTGTTCATAACATCTTCTGGAAGTGTTCTTTGAGTTATC
1 CCAATCATTGAATTTAGAAGATGAATGTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
36357 TGATCTGGTTTGGCAGAA
66 TGATCTGGTTTGGCAGAA
*
36375 CCAAT-ATTTGAATTTGGAAGATGAATGTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
1 CCAATCA-TTGAATTTAGAAGATGAATGTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
36439 CTGATCTGGTTTGG
65 CTGATCTGGTTTGG
36453 TAGGAACTAC
Statistics
Matches: 391, Mismatches: 18, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
82 1 0.00
83 390 1.00
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.37
Consensus pattern (83 bp):
CCAATCATTGAATTTAGAAGATGAATGTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
TGATCTGGTTTGGCAGAA
Found at i:37383 original size:113 final size:113
Alignment explanation
Indices: 37187--38075 Score: 1464
Period size: 113 Copynumber: 7.9 Consensus size: 113
37177 AAACTATTAT
*
37187 TTGATGGATTGACATTT-CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
1 TTGATGGATT-ATATTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
* *
37251 AAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATCCATCAT
65 AAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATTCATCAC
*
37300 TTGATGGATCATCATTT-CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
1 TTGATGGATTAT-ATTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
* *
37364 AAGTTCATAATGAGAAGAATTTGTTCAATCTTTTACCTGAATTCATCAC
65 AAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATTCATCAC
* *
37413 TTGATGGATTATTTTTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATTATATTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
* *
37478 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATCCATCAT
66 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATTCATCAC
* *
37526 TTGATGGATCATCATTT-CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAATAAG
1 TTGATGGATTAT-ATTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
*
37590 AAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAC
65 AAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATTCATCAC
* * *
37639 TTGATGGATTATTTTTACCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATTATATTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
* *
37704 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATCCATCAT
66 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATTCATCAC
*
37752 TTGATGGATCATCATTT-CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
1 TTGATGGATTAT-ATTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
*
37816 AAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAC
65 AAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATTCATCAC
* * *
37865 TTGATGGATTATTTTTGCCAGAGAAAGTTTATAATGAGAAGAACTCATCTGAAGAAGGAAGAAAA
1 TTGATGGATTATATTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
*
37930 AGTTCATAATGAGAAGAATTTGTTCAACCTTTT-GTCTGAATTCATCAC
66 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACT-TGAATTCATCAC
* *
37978 TTGATGGATTATTTTTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATTATATTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
38043 AGTTCATAATGAGAAGAATTTGTTCAACCTTTT
66 AGTTCATAATGAGAAGAATTTGTTCAACCTTTT
38076 GTCTAAATTC
Statistics
Matches: 727, Mismatches: 42, Indels: 14
0.93 0.05 0.02
Matches are distributed among these distances:
112 10 0.01
113 711 0.98
114 6 0.01
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.30
Consensus pattern (113 bp):
TTGATGGATTATATTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATTCATCAC
Found at i:38383 original size:3 final size:3
Alignment explanation
Indices: 38375--38427 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
38365 TTTTTACCCA
*
38375 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
38423 TAT TA
1 TAT TA
38428 AATATATATT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:45464 original size:7 final size:7
Alignment explanation
Indices: 45452--45498 Score: 94
Period size: 7 Copynumber: 6.7 Consensus size: 7
45442 CTTGAGATTT
45452 GGTTTAG
1 GGTTTAG
45459 GGTTTAG
1 GGTTTAG
45466 GGTTTAG
1 GGTTTAG
45473 GGTTTAG
1 GGTTTAG
45480 GGTTTAG
1 GGTTTAG
45487 GGTTTAG
1 GGTTTAG
45494 GGTTT
1 GGTTT
45499 GTAGATGAAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.13, C:0.00, G:0.43, T:0.45
Consensus pattern (7 bp):
GGTTTAG
Found at i:47930 original size:123 final size:123
Alignment explanation
Indices: 47791--48037 Score: 476
Period size: 123 Copynumber: 2.0 Consensus size: 123
47781 CAAATACTCC
*
47791 TTGGTTCATTATTATTGTTGATTTTGACATTTTTACATTATTTTTGTGCATGACAATGACTTCTG
1 TTGGTTCATTATTATTGTTGATTTTGACATTTTTACATGATTTTTGTGCATGACAATGACTTCTG
*
47856 GACAATGTGCTTAAAAGGCATGAAAATTGCACTTTTTGTTATGGAATCAAGGCTGGAA
66 GACAATGTGCTTAAAAGGCATGAAAACTGCACTTTTTGTTATGGAATCAAGGCTGGAA
47914 TTGGTTCATTATTATTGTTGATTTTGACATTTTTACATGATTTTTGTGCATGACAATGACTTCTG
1 TTGGTTCATTATTATTGTTGATTTTGACATTTTTACATGATTTTTGTGCATGACAATGACTTCTG
47979 GACAATGTGCTTAAAAGGCATGAAAACTGCACTTTTTGTTATGGAATCAAGGCTGGAA
66 GACAATGTGCTTAAAAGGCATGAAAACTGCACTTTTTGTTATGGAATCAAGGCTGGAA
48037 T
1 T
48038 AGTGGGCCTG
Statistics
Matches: 122, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
123 122 1.00
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.41
Consensus pattern (123 bp):
TTGGTTCATTATTATTGTTGATTTTGACATTTTTACATGATTTTTGTGCATGACAATGACTTCTG
GACAATGTGCTTAAAAGGCATGAAAACTGCACTTTTTGTTATGGAATCAAGGCTGGAA
Found at i:48110 original size:23 final size:23
Alignment explanation
Indices: 48083--48127 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
48073 AGTTCATCAA
*
48083 CAGCTTCTAGAAGATCTAGTCAG
1 CAGCTTCTAGAAGATCCAGTCAG
* *
48106 CAGCTTCTTGAAGGTCCAGTCA
1 CAGCTTCTAGAAGATCCAGTCA
48128 ATAATTATAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (23 bp):
CAGCTTCTAGAAGATCCAGTCAG
Found at i:50208 original size:29 final size:30
Alignment explanation
Indices: 50140--50197 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
50130 AATTTAAGGT
* * *
50140 AAAATGTTTTTGGACTTGAATTGAATTTAC
1 AAAATATTTTTGGACTTGAACTAAATTTAC
50170 AAAATATTTTTGGACTT-AACTAAATTTA
1 AAAATATTTTTGGACTTGAACTAAATTTA
50198 TTCAAATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 9 0.36
30 16 0.64
ACGTcount: A:0.38, C:0.07, G:0.12, T:0.43
Consensus pattern (30 bp):
AAAATATTTTTGGACTTGAACTAAATTTAC
Found at i:50549 original size:21 final size:21
Alignment explanation
Indices: 50520--50559 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
50510 TTTGAGTAAA
50520 AAAATCATCCCCAAATGGCTCC
1 AAAATCATCCCC-AATGGCTCC
*
50542 AAAA-CATCCTCAATGGCT
1 AAAATCATCCCCAATGGCT
50560 ATATACAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 6 0.35
22 4 0.24
ACGTcount: A:0.38, C:0.33, G:0.10, T:0.20
Consensus pattern (21 bp):
AAAATCATCCCCAATGGCTCC
Found at i:53667 original size:30 final size:29
Alignment explanation
Indices: 53627--53684 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
53617 AATTTAAGGA
*
53627 AAAATGTTTTTGGA-TGTGAATTGAATTTAC
1 AAAATATTTTTGGACT-T-AATTGAATTTAC
53657 AAAATATTTTTGGACTTAATTGAATTTA
1 AAAATATTTTTGGACTTAATTGAATTTA
53685 TTCAAAGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 11 0.42
30 14 0.54
31 1 0.04
ACGTcount: A:0.36, C:0.03, G:0.16, T:0.45
Consensus pattern (29 bp):
AAAATATTTTTGGACTTAATTGAATTTAC
Found at i:55079 original size:6 final size:6
Alignment explanation
Indices: 55070--55111 Score: 84
Period size: 6 Copynumber: 7.0 Consensus size: 6
55060 TTCATCACCA
55070 TCTCAT TCTCAT TCTCAT TCTCAT TCTCAT TCTCAT TCTCAT
1 TCTCAT TCTCAT TCTCAT TCTCAT TCTCAT TCTCAT TCTCAT
55112 GAAATAGTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.17, C:0.33, G:0.00, T:0.50
Consensus pattern (6 bp):
TCTCAT
Found at i:60659 original size:16 final size:16
Alignment explanation
Indices: 60638--60670 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
60628 AGTGTCGTGT
60638 CTTTTCTATCAATACA
1 CTTTTCTATCAATACA
60654 CTTTTCTATCAATACA
1 CTTTTCTATCAATACA
60670 C
1 C
60671 CTGGTGTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.27, G:0.00, T:0.42
Consensus pattern (16 bp):
CTTTTCTATCAATACA
Found at i:64919 original size:2 final size:2
Alignment explanation
Indices: 64912--64990 Score: 158
Period size: 2 Copynumber: 39.5 Consensus size: 2
64902 AGTCCATCTT
64912 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
64954 TA TA TA TA TA TA 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 TA TA TA TA TA TA T
64991 GAAATATGTG
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 77 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:65325 original size:7 final size:7
Alignment explanation
Indices: 65313--65347 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
65303 CCTTCGGGAT
65313 ATATGTG
1 ATATGTG
65320 ATATGTG
1 ATATGTG
65327 ATATGTG
1 ATATGTG
65334 ATATGTG
1 ATATGTG
65341 ATATGTG
1 ATATGTG
65348 GTCATTCGGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.43
Consensus pattern (7 bp):
ATATGTG
Found at i:68887 original size:2 final size:2
Alignment explanation
Indices: 68880--68914 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
68870 TTAAGTATGA
68880 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
68915 GTATTTGATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:69619 original size:45 final size:45
Alignment explanation
Indices: 69568--69659 Score: 175
Period size: 45 Copynumber: 2.0 Consensus size: 45
69558 GAGGAGTCTA
*
69568 ATCCGATATTAGGTTATATGAGTACTGGAACATAAGCATGTAGTG
1 ATCCGATATTAGGTTATATGAGTACTGAAACATAAGCATGTAGTG
69613 ATCCGATATTAGGTTATATGAGTACTGAAACATAAGCATGTAGTG
1 ATCCGATATTAGGTTATATGAGTACTGAAACATAAGCATGTAGTG
69658 AT
1 AT
69660 AGTATGTTAG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.32
Consensus pattern (45 bp):
ATCCGATATTAGGTTATATGAGTACTGAAACATAAGCATGTAGTG
Found at i:69721 original size:2 final size:2
Alignment explanation
Indices: 69714--69750 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
69704 AGTCCATCTT
69714 TA TA TA TA TA TA 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 TA TA TA TA TA TA T
69751 GAAATATGTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:71612 original size:19 final size:21
Alignment explanation
Indices: 71571--71626 Score: 62
Period size: 23 Copynumber: 2.6 Consensus size: 21
71561 TTCAAAAAAA
71571 GAAAGAAAAAATAGTAGTAGTTC
1 GAAAGAAAAAA-AGTA-TAGTTC
71594 GAAAGAAAAAAAGT-T-GTTC
1 GAAAGAAAAAAAGTATAGTTC
71613 GAAAACGAAAAAAA
1 G-AAA-GAAAAAAA
71627 AAAACAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
19 5 0.16
20 4 0.13
21 8 0.26
22 3 0.10
23 11 0.35
ACGTcount: A:0.59, C:0.05, G:0.20, T:0.16
Consensus pattern (21 bp):
GAAAGAAAAAAAGTATAGTTC
Found at i:72074 original size:20 final size:20
Alignment explanation
Indices: 72046--72096 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
72036 AATGAATAGA
*
72046 TGTTACAATTGTATTTAACT
1 TGTTCCAATTGTATTTAACT
72066 TGTTCCAATTGTATTTAACT
1 TGTTCCAATTGTATTTAACT
72086 TGTTCCAATTG
1 TGTTCCAATTG
72097 GTGATGTTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.25, C:0.14, G:0.12, T:0.49
Consensus pattern (20 bp):
TGTTCCAATTGTATTTAACT
Found at i:72779 original size:18 final size:19
Alignment explanation
Indices: 72740--72802 Score: 73
Period size: 18 Copynumber: 3.5 Consensus size: 19
72730 AAATTATATC
72740 TTTTC-TTTTCTTTTCAAG
1 TTTTCATTTTCTTTTCAAG
72758 TTTTCATTTTCATTTTC-A-
1 TTTTCATTTTC-TTTTCAAG
*
72776 TTTTCATTTTGTTTT-AAG
1 TTTTCATTTTCTTTTCAAG
72794 TTTT-ATTTT
1 TTTTCATTTT
72803 TAAACATGCT
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
17 10 0.25
18 19 0.47
19 6 0.15
20 5 0.12
ACGTcount: A:0.14, C:0.11, G:0.05, T:0.70
Consensus pattern (19 bp):
TTTTCATTTTCTTTTCAAG
Found at i:72804 original size:6 final size:6
Alignment explanation
Indices: 72740--72785 Score: 60
Period size: 6 Copynumber: 7.7 Consensus size: 6
72730 AAATTATATC
72740 TTTTC- TTTTC- TTTTCAA GTTTTCA TTTTCA TTTTCA TTTTCA TTTT
1 TTTTCA TTTTCA TTTTC-A -TTTTCA TTTTCA TTTTCA TTTTCA TTTT
72786 GTTTTAAGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
5 10 0.26
6 22 0.58
7 1 0.03
8 5 0.13
ACGTcount: A:0.13, C:0.15, G:0.02, T:0.70
Consensus pattern (6 bp):
TTTTCA
Found at i:74475 original size:27 final size:27
Alignment explanation
Indices: 74437--74492 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
74427 AAGCATAGTC
74437 ACAAGGATTGGTCCTTGTAGATAAGTA
1 ACAAGGATTGGTCCTTGTAGATAAGTA
74464 ACAAGGATTGGTCCTTGTAGATAAGTA
1 ACAAGGATTGGTCCTTGTAGATAAGTA
74491 AC
1 AC
74493 CGACATGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (27 bp):
ACAAGGATTGGTCCTTGTAGATAAGTA
Found at i:78093 original size:22 final size:22
Alignment explanation
Indices: 78068--78149 Score: 60
Period size: 22 Copynumber: 3.7 Consensus size: 22
78058 TAGGATGAAT
78068 AAAGTGCTTTAGCACTAGTACG
1 AAAGTGCTTTAGCACTAGTACG
* * * *
78090 AAAGTGATTCAACACT-GATATG
1 AAAGTGCTTTAGCACTAG-TACG
* * *
78112 AAAGTGCATTT-TCACTAATACT
1 AAAGTGC-TTTAGCACTAGTACG
*
78134 AAAGTGCCTTAGCACT
1 AAAGTGCTTTAGCACT
78150 GCTGAGAATA
Statistics
Matches: 44, Mismatches: 12, Indels: 8
0.69 0.19 0.12
Matches are distributed among these distances:
21 3 0.07
22 39 0.89
23 2 0.05
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.29
Consensus pattern (22 bp):
AAAGTGCTTTAGCACTAGTACG
Found at i:79293 original size:16 final size:17
Alignment explanation
Indices: 79268--79301 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
79258 CCAAGGTGTC
79268 ACATTGACTTTT-CAAA
1 ACATTGACTTTTACAAA
*
79284 ACATTTACTTTTACAAA
1 ACATTGACTTTTACAAA
79301 A
1 A
79302 GAATGAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.41, C:0.18, G:0.03, T:0.38
Consensus pattern (17 bp):
ACATTGACTTTTACAAA
Found at i:80022 original size:20 final size:21
Alignment explanation
Indices: 79983--80024 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
79973 ATGAAATTTG
*
79983 TCCCGAAGAACCTCATGTATA
1 TCCCAAAGAACCTCATGTATA
80004 TCCCAAAGAACCT-ATGTATA
1 TCCCAAAGAACCTCATGTATA
80024 T
1 T
80025 GTCCCGAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.36, C:0.26, G:0.12, T:0.26
Consensus pattern (21 bp):
TCCCAAAGAACCTCATGTATA
Found at i:80038 original size:22 final size:22
Alignment explanation
Indices: 79981--80043 Score: 78
Period size: 22 Copynumber: 2.9 Consensus size: 22
79971 ATATGAAATT
79981 TGTCCCGAAGAACCTCATGTATA
1 TGTCCCGAAGAACCT-ATGTATA
*
80004 --TCCCAAAGAACCTATGTATA
1 TGTCCCGAAGAACCTATGTATA
80024 TGTCCCGAATG-ACCTATGTA
1 TGTCCCGAA-GAACCTATGTA
80044 ACCCTCGACT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
20 7 0.20
21 12 0.34
22 15 0.43
23 1 0.03
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (22 bp):
TGTCCCGAAGAACCTATGTATA
Found at i:81538 original size:17 final size:17
Alignment explanation
Indices: 81490--81541 Score: 54
Period size: 17 Copynumber: 3.0 Consensus size: 17
81480 CTGGCCTCAT
*
81490 GGTATCGGTA-CCCTT-
1 GGTATCGATACCCCTTA
81505 GGTATCGATACTACCCCTTA
1 GGTATCG--A-TACCCCTTA
81525 GGTATCGATACCCCTTA
1 GGTATCGATACCCCTTA
81542 AATAACTTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
15 7 0.23
17 9 0.29
18 3 0.10
19 5 0.16
20 7 0.23
ACGTcount: A:0.21, C:0.29, G:0.19, T:0.31
Consensus pattern (17 bp):
GGTATCGATACCCCTTA
Found at i:82497 original size:19 final size:20
Alignment explanation
Indices: 82473--82510 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
82463 GATAACTTAC
82473 AAGAGGAAGAAGA-AAAGAG
1 AAGAGGAAGAAGACAAAGAG
82492 AAGAGGAAGAAGACAAAGA
1 AAGAGGAAGAAGACAAAGA
82511 AGCATGCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.63, C:0.03, G:0.34, T:0.00
Consensus pattern (20 bp):
AAGAGGAAGAAGACAAAGAG
Found at i:82910 original size:19 final size:20
Alignment explanation
Indices: 82883--82926 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
82873 TCGAGTTCAC
* *
82883 AATTATATTT-TATAATTTA
1 AATTATATTTAAAGAATTTA
*
82902 AATTTTATTTAAAGAATTTA
1 AATTATATTTAAAGAATTTA
82922 AATTA
1 AATTA
82927 AATTAAATTA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (20 bp):
AATTATATTTAAAGAATTTA
Found at i:84286 original size:16 final size:17
Alignment explanation
Indices: 84265--84297 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
84255 AATATTATAA
84265 ATATAAT-ATTTAAAAT
1 ATATAATAATTTAAAAT
84281 ATATAATAATTTAAAAT
1 ATATAATAATTTAAAAT
84298 TTTCAAGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
ATATAATAATTTAAAAT
Found at i:95699 original size:18 final size:18
Alignment explanation
Indices: 95676--95712 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
95666 AAAAAAATTG
95676 GAAACAACCTTAGTCTGT
1 GAAACAACCTTAGTCTGT
* *
95694 GAAACAGCCTTAGTGTGT
1 GAAACAACCTTAGTCTGT
95712 G
1 G
95713 TGGATCGGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (18 bp):
GAAACAACCTTAGTCTGT
Found at i:96160 original size:143 final size:143
Alignment explanation
Indices: 95902--96188 Score: 538
Period size: 143 Copynumber: 2.0 Consensus size: 143
95892 AAACCATGAC
*
95902 TTGTTCTGGCCTAGAAGACAAACTTAAGCACCTAAAGTTTAGGATTCCAGCGATTTTCACTTCAA
1 TTGTTCTGGCCTAGAAGACAAACTTAAGCACCTAAAGTTTAGGATTCCAACGATTTTCACTTCAA
*
95967 TGAGACCCACAAAACAGGTAAAATTTGTTCTTTCTTCTTATTTTTTCATTTTGAATCTCAGCATA
66 CGAGACCCACAAAACAGGTAAAATTTGTTCTTTCTTCTTATTTTTTCATTTTGAATCTCAGCATA
96032 AATGTATAAAAAA
131 AATGTATAAAAAA
*
96045 TTGTTCTGGCCTAGAAGACAAACTTAAGCACCTAAAGTTTAGGATTCCAATGATTTTCACTTCAA
1 TTGTTCTGGCCTAGAAGACAAACTTAAGCACCTAAAGTTTAGGATTCCAACGATTTTCACTTCAA
*
96110 CGAGACCCACAAAACAGGTAAAATTTGTTTTTTCTTCTTATTTTTTCATTTTGAATCTCAGCATA
66 CGAGACCCACAAAACAGGTAAAATTTGTTCTTTCTTCTTATTTTTTCATTTTGAATCTCAGCATA
96175 AATGTATAAAAAA
131 AATGTATAAAAAA
96188 T
1 T
96189 GGAGATTTAA
Statistics
Matches: 140, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
143 140 1.00
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.36
Consensus pattern (143 bp):
TTGTTCTGGCCTAGAAGACAAACTTAAGCACCTAAAGTTTAGGATTCCAACGATTTTCACTTCAA
CGAGACCCACAAAACAGGTAAAATTTGTTCTTTCTTCTTATTTTTTCATTTTGAATCTCAGCATA
AATGTATAAAAAA
Found at i:98958 original size:17 final size:17
Alignment explanation
Indices: 98932--98987 Score: 69
Period size: 17 Copynumber: 3.3 Consensus size: 17
98922 AGCCGTTGCA
98932 ACCA-GGGGGTATAGAT
1 ACCATGGGGGTATAGAT
*
98948 ACCATGGGGGTATCGAT
1 ACCATGGGGGTATAGAT
* *
98965 ACCATAAGAGGTATAGAT
1 ACCAT-GGGGGTATAGAT
98983 ACCAT
1 ACCAT
98988 CCAAGCAATC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
16 4 0.12
17 16 0.47
18 14 0.41
ACGTcount: A:0.34, C:0.16, G:0.29, T:0.21
Consensus pattern (17 bp):
ACCATGGGGGTATAGAT
Found at i:98983 original size:18 final size:17
Alignment explanation
Indices: 98939--98987 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
98929 GCAACCAGGG
* *
98939 GGTATAGATACCATGGG
1 GGTATAGATACCATAGA
*
98956 GGTATCGATACCATAAGA
1 GGTATAGATACCAT-AGA
98974 GGTATAGATACCAT
1 GGTATAGATACCAT
98988 CCAAGCAATC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
17 13 0.48
18 14 0.52
ACGTcount: A:0.35, C:0.14, G:0.27, T:0.24
Consensus pattern (17 bp):
GGTATAGATACCATAGA
Found at i:99626 original size:25 final size:26
Alignment explanation
Indices: 99598--99651 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
99588 AGACTAAAAT
*
99598 ATTTTAT-GCAATACCAATTGTTGAA
1 ATTTTATAGCAATACCAATTGTTAAA
*
99623 ATTTTATATCAATACCAATTGTTAAA
1 ATTTTATAGCAATACCAATTGTTAAA
99649 ATT
1 ATT
99652 AAGTGCATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 7 0.27
26 19 0.73
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.43
Consensus pattern (26 bp):
ATTTTATAGCAATACCAATTGTTAAA
Found at i:100421 original size:23 final size:23
Alignment explanation
Indices: 100377--100422 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
100367 TAAATCAAAA
* *
100377 TTTTCTTTTTCAAAACTTTAAAT
1 TTTTATTTTTCAAAACTCTAAAT
* *
100400 TTTTATTTTTGAAAGCTCTAAAT
1 TTTTATTTTTCAAAACTCTAAAT
100423 CCTTTTTCAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.30, C:0.11, G:0.04, T:0.54
Consensus pattern (23 bp):
TTTTATTTTTCAAAACTCTAAAT
Found at i:100469 original size:19 final size:20
Alignment explanation
Indices: 100426--100473 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
100416 TCTAAATCCT
*
100426 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
100446 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
100465 TTTTCAAAA
1 TTTTCAAAA
100474 GAAAATCGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:101961 original size:30 final size:30
Alignment explanation
Indices: 101927--101986 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
101917 AACTTTGAAT
*
101927 AAATTCAATTCATGTCCAAAAACATTTTGC
1 AAATTCAATTCAAGTCCAAAAACATTTTGC
101957 AAATTCAATTCAAGTCCAAAAACATTTTGC
1 AAATTCAATTCAAGTCCAAAAACATTTTGC
101987 CTTAAATTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.32
Consensus pattern (30 bp):
AAATTCAATTCAAGTCCAAAAACATTTTGC
Found at i:104970 original size:3 final size:3
Alignment explanation
Indices: 104964--105053 Score: 171
Period size: 3 Copynumber: 29.7 Consensus size: 3
104954 CATCATCATC
104964 ATT ATT ATT ATT ATT ATT ATT ATT ATTT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT
105010 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
105054 ATAGTTAGAT
Statistics
Matches: 86, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
3 83 0.97
4 3 0.03
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:106291 original size:6 final size:6
Alignment explanation
Indices: 106280--106306 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
106270 TTCTTTATTG
106280 TCATTT TCATTT TCATTT TCATTT TCA
1 TCATTT TCATTT TCATTT TCATTT TCA
106307 ATAAGTTTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.00, T:0.63
Consensus pattern (6 bp):
TCATTT
Found at i:106350 original size:23 final size:23
Alignment explanation
Indices: 106320--106366 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
106310 AGTTTGCATG
*
106320 TATGACACATTTTCATCTGCCTT
1 TATGACACATTTTCATCTACCTT
* *
106343 TATGACACGTTTTCTTCTACCTT
1 TATGACACATTTTCATCTACCTT
106366 T
1 T
106367 TGGCATTTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.19, C:0.26, G:0.09, T:0.47
Consensus pattern (23 bp):
TATGACACATTTTCATCTACCTT
Found at i:109960 original size:21 final size:21
Alignment explanation
Indices: 109936--109981 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
109926 GAAGAAGTGG
*
109936 AAGTAGATGAATTACCTTGGT
1 AAGTAGATGAAGTACCTTGGT
109957 AAGTAGATGAAGTACCTTGGT
1 AAGTAGATGAAGTACCTTGGT
109978 AAGT
1 AAGT
109982 TTCTCTGAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.35, C:0.09, G:0.26, T:0.30
Consensus pattern (21 bp):
AAGTAGATGAAGTACCTTGGT
Found at i:116601 original size:26 final size:24
Alignment explanation
Indices: 116571--116625 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 24
116561 CAATTAGAAC
*
116571 AAAAAGAGAAAAAGCAAAGAGAAAA
1 AAAAAGAGAAAAA-AAAAGAGAAAA
116596 AGAAAAGAGAAAAAAAAAGAGAAAA
1 A-AAAAGAGAAAAAAAAAGAGAAAA
116621 AAAAA
1 AAAAA
116626 CAAAGGAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 4 0.14
25 12 0.43
26 12 0.43
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (24 bp):
AAAAAGAGAAAAAAAAAGAGAAAA
Found at i:116608 original size:12 final size:13
Alignment explanation
Indices: 116572--116625 Score: 85
Period size: 13 Copynumber: 4.3 Consensus size: 13
116562 AATTAGAACA
116572 AAAAGAGAAAAAG
1 AAAAGAGAAAAAG
*
116585 CAAAGAGAAAAAG
1 AAAAGAGAAAAAG
116598 AAAAGAGAAAAA-
1 AAAAGAGAAAAAG
116610 AAAAGAGAAAAA-
1 AAAAGAGAAAAAG
116622 AAAA
1 AAAA
116626 CAAAGGAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
12 16 0.41
13 23 0.59
ACGTcount: A:0.80, C:0.02, G:0.19, T:0.00
Consensus pattern (13 bp):
AAAAGAGAAAAAG
Found at i:117793 original size:33 final size:33
Alignment explanation
Indices: 117750--117825 Score: 109
Period size: 33 Copynumber: 2.3 Consensus size: 33
117740 GCATCTTTGA
117750 AGATTCAACATAAAATGTTAGGGCATTTTTTTT
1 AGATTCAACATAAAATGTTAGGGCATTTTTTTT
* * * *
117783 AGATTTAACATCAAATGTTGGGGCA-TTTTTTG
1 AGATTCAACATAAAATGTTAGGGCATTTTTTTT
117815 AGATTCAACAT
1 AGATTCAACAT
117826 CGAATATTGA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
32 16 0.42
33 22 0.58
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (33 bp):
AGATTCAACATAAAATGTTAGGGCATTTTTTTT
Found at i:117819 original size:32 final size:32
Alignment explanation
Indices: 117745--117858 Score: 113
Period size: 32 Copynumber: 3.5 Consensus size: 32
117735 TGAGGGCATC
* *
117745 TTTGAAGATTCAACATAAAATGTTAGGGCATTTT
1 TTTG-AGATTCAACATCAAATGTTGGGGCA-TTT
* *
117779 TTTTAGATTTAACATCAAATGTTGGGGCATTT
1 TTTGAGATTCAACATCAAATGTTGGGGCATTT
* * * *
117811 TTTGAGATTCAACATCGAATATTGAGGCA-TC
1 TTTGAGATTCAACATCAAATGTTGGGGCATTT
*
117842 TTTGGGAATTCAACATC
1 TTTGAG-ATTCAACATC
117859 CTGATGCAAA
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
31 6 0.09
32 37 0.54
33 22 0.32
34 3 0.04
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (32 bp):
TTTGAGATTCAACATCAAATGTTGGGGCATTT
Found at i:118803 original size:67 final size:66
Alignment explanation
Indices: 118694--118826 Score: 153
Period size: 67 Copynumber: 2.0 Consensus size: 66
118684 ACAGTTTCCA
** * *
118694 AGTTTCCCTTGAAACAAAATATTTGAATTTATCTCTCCTAAAA-TAAATTTTGTCTCCCTTGAGA
1 AGTTTCCCTTGAAACAAAATATTCAAATTTATCTCTCCTAAAACAAAATTTTATCTCCCTTGAGA
118758 T
66 T
* * * *
118759 AGTTTCTCTTGAAAGACAAAATCTTCAAATTTATTTC-CCTTAAAACAAAATTTTATTTCCCTTG
1 AGTTTCCCTTG-AA-ACAAAATATTCAAATTTATCTCTCC-TAAAACAAAATTTTATCTCCCTTG
118823 AGAT
63 AGAT
118827 CATTTTTCAT
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
65 10 0.18
66 4 0.07
67 23 0.41
68 19 0.34
ACGTcount: A:0.34, C:0.18, G:0.08, T:0.40
Consensus pattern (66 bp):
AGTTTCCCTTGAAACAAAATATTCAAATTTATCTCTCCTAAAACAAAATTTTATCTCCCTTGAGA
T
Found at i:119754 original size:106 final size:106
Alignment explanation
Indices: 119552--120028 Score: 678
Period size: 106 Copynumber: 4.5 Consensus size: 106
119542 ACGAAGGGGC
* *
119552 TTCCTAGTTTCAGAGCCAATTTTAACTTCACAGCGAGGGATATTGGACTCAAGACAACACAAGCT
1 TTCCCAGTTTCAGAGCCAATTTCAACTTCACAGCGAGGGATATTGGACTCAAGACAACACAAGCT
* * *
119617 CAACTTCACAACGAAGGGGCGGCTGGTTGTCAACAAACATT
66 CAACTTCACAACGAAGGGGTGACTGGCTGTCAACAAACATT
119658 TTCCCAGTTTCAGAGCCAATTTCAACTTCACAGCGAGGGATATTGGACTCAAGACAACACAAGCT
1 TTCCCAGTTTCAGAGCCAATTTCAACTTCACAGCGAGGGATATTGGACTCAAGACAACACAAGCT
119723 CAACTTCACAACGAAGGGGTGACTGGCTGTCAACAAACATT
66 CAACTTCACAACGAAGGGGTGACTGGCTGTCAACAAACATT
* *
119764 TTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAGGGATATTGGACTTAAGACAACACAAGCT
1 TTCCCAGTTTCAGAGCCAATTTCAACTTCACAGCGAGGGATATTGGACTCAAGACAACACAAGCT
***
119829 CAACTTCACAACGAAGGGGTGACTAATTGTCAACAAACAACTT
66 CAACTTCACAACGAAGGGGTGACTGGCTGTCAACAAAC-A-TT
* * * *
119872 TT--CAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGAACTCGAGACAACACA
1 TTCCCAG--T--TTCAGAGCCAATTTCAACTTCACAGCGAGGGATATTGGACTCAAGACAACACA
* * *
119935 AGCTCAACTTCACAGCGAAAGGGTGACTGGCTGTCAACAAACAAT
62 AGCTCAACTTCACAACGAAGGGGTGACTGGCTGTCAACAAACATT
119980 TTCCCAG-TTCTAGAG-CAATTTCAACTTCAC-GACG-GAGGATATTGGACTC
1 TTCCCAGTTTC-AGAGCCAATTTCAACTTCACAG-CGAG-GGATATTGGACTC
120029 GGAACAATAC
Statistics
Matches: 336, Mismatches: 24, Indels: 23
0.88 0.06 0.06
Matches are distributed among these distances:
104 1 0.00
105 32 0.10
106 205 0.61
107 1 0.00
108 8 0.02
109 1 0.00
110 88 0.26
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.23
Consensus pattern (106 bp):
TTCCCAGTTTCAGAGCCAATTTCAACTTCACAGCGAGGGATATTGGACTCAAGACAACACAAGCT
CAACTTCACAACGAAGGGGTGACTGGCTGTCAACAAACATT
Found at i:124175 original size:31 final size:32
Alignment explanation
Indices: 124128--124187 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 32
124118 TTTTGAAAAA
*
124128 AAAATTGAAAGTTTAGGTACTAAA-ACATACC
1 AAAACTGAAAGTTTAGGTACTAAATACATACC
*
124159 AAAACTGATAGTTTAGGTACTAAATACAT
1 AAAACTGAAAGTTTAGGTACTAAATACAT
124188 TAAAGGTGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 22 0.85
32 4 0.15
ACGTcount: A:0.47, C:0.12, G:0.13, T:0.28
Consensus pattern (32 bp):
AAAACTGAAAGTTTAGGTACTAAATACATACC
Found at i:125372 original size:29 final size:30
Alignment explanation
Indices: 125331--125413 Score: 87
Period size: 34 Copynumber: 2.7 Consensus size: 30
125321 TTCTGCAATT
*
125331 AAACTCACAAATGAGTATTATTCT-TAAAA
1 AAACTTACAAATGAGTATTATTCTATAAAA
* * *
125360 AACCTTACAAATGAATATAATTCTAAAAATAAAA
1 AAACTTACAAATGAGTATTATTCT----ATAAAA
125394 AAACTTACAAATGAGTATTA
1 AAACTTACAAATGAGTATTA
125414 ATTGTGGACT
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
29 20 0.48
34 22 0.52
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.29
Consensus pattern (30 bp):
AAACTTACAAATGAGTATTATTCTATAAAA
Found at i:125529 original size:3 final size:3
Alignment explanation
Indices: 125523--125578 Score: 87
Period size: 3 Copynumber: 18.7 Consensus size: 3
125513 TTCTATTTAC
*
125523 TAT TAT TAT TATT TAT TAT TAT TAT TAT GAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
125569 T-T TAT TAT TA
1 TAT TAT TAT TA
125579 CAAACGGGCC
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
2 2 0.04
3 44 0.90
4 3 0.06
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:126972 original size:27 final size:26
Alignment explanation
Indices: 126942--127000 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
126932 TAAATAGATA
*
126942 TAATAAATAATTATTTATATATATTTT
1 TAATAAATAATT-TTAATATATATTTT
* *
126969 TAATAAATTATTTTAATATTTATTTT
1 TAATAAATAATTTTAATATATATTTT
126995 TCAATA
1 T-AATA
127001 TCGAAGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 13 0.46
27 15 0.54
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (26 bp):
TAATAAATAATTTTAATATATATTTT
Found at i:127684 original size:24 final size:23
Alignment explanation
Indices: 127644--127693 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
127634 TTAATTTATA
*
127644 ATTTTTTTATATATATACATATT
1 ATTTTTATATATATATACATATT
* *
127667 ATTTTTATAGTATTTATATATATT
1 ATTTTTATA-TATATATACATATT
127691 ATT
1 ATT
127694 AATATTTCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (23 bp):
ATTTTTATATATATATACATATT
Found at i:131000 original size:15 final size:15
Alignment explanation
Indices: 130980--131011 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
130970 ATCAATACCT
130980 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
130995 TTTTGCATACATTCA
1 TTTTGCATACATGCA
131010 TT
1 TT
131012 ATTCATTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATGCA
Found at i:138309 original size:1 final size:1
Alignment explanation
Indices: 138303--138357 Score: 56
Period size: 1 Copynumber: 55.0 Consensus size: 1
138293 ATGCTTGAAG
* * * * * *
138303 AAAAAAAACAAAAAAACAAAAAAAAAACAAAAAAAAACAAAACAAAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
138358 GGGGGGTCAA
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.89, C:0.09, G:0.02, T:0.00
Consensus pattern (1 bp):
A
Found at i:138326 original size:11 final size:11
Alignment explanation
Indices: 138303--138357 Score: 69
Period size: 11 Copynumber: 5.2 Consensus size: 11
138293 ATGCTTGAAG
*
138303 AAAAAA-AACA
1 AAAAAACAAAA
138313 AAAAAACAAAA
1 AAAAAACAAAA
138324 AAAAAAC-AAA
1 AAAAAACAAAA
138334 AAAAAACAAAA
1 AAAAAACAAAA
* *
138345 CAAAAAGAAAA
1 AAAAAACAAAA
138356 AA
1 AA
138358 GGGGGGTCAA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
10 16 0.41
11 23 0.59
ACGTcount: A:0.89, C:0.09, G:0.02, T:0.00
Consensus pattern (11 bp):
AAAAAACAAAA
Found at i:138329 original size:21 final size:21
Alignment explanation
Indices: 138303--138357 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
138293 ATGCTTGAAG
138303 AAAAAAAAC--AAAAAAACAA
1 AAAAAAAACAAAAAAAAACAA
138322 AAAAAAAACAAAAAAAAACAA
1 AAAAAAAACAAAAAAAAACAA
* *
138343 AACAAAAAGAAAAAA
1 AAAAAAAACAAAAAA
138358 GGGGGGTCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 9 0.28
21 23 0.72
ACGTcount: A:0.89, C:0.09, G:0.02, T:0.00
Consensus pattern (21 bp):
AAAAAAAACAAAAAAAAACAA
Found at i:138336 original size:26 final size:27
Alignment explanation
Indices: 138304--138356 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
138294 TGCTTGAAGA
*
138304 AAAAAAACAAAAAAACAAAAA-AAAAAC
1 AAAAAAA-AACAAAACAAAAAGAAAAAC
138331 AAAAAAAAACAAAACAAAAAGAAAAA
1 AAAAAAAAACAAAACAAAAAGAAAAA
138357 AGGGGGGTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 12 0.50
27 12 0.50
ACGTcount: A:0.89, C:0.09, G:0.02, T:0.00
Consensus pattern (27 bp):
AAAAAAAAACAAAACAAAAAGAAAAAC
Found at i:139783 original size:165 final size:165
Alignment explanation
Indices: 139505--140218 Score: 1220
Period size: 165 Copynumber: 4.3 Consensus size: 165
139495 GAATAAATGC
*
139505 AATGTACTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAACCAATT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAACCAATT
139570 ATTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
66 ATTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
139635 GGTTTGGCAGAACCAATCATTGAATTTGGAAGATG
131 GGTTTGGCAGAACCAATCATTGAATTTGGAAGATG
139670 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAACCAATT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAACCAATT
*
139735 ATTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATAT
66 ATTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
139800 GGTTTGGCAGAACCAATCATTGAATTTGGAAGATG
131 GGTTTGGCAGAACCAATCATTGAATTTGGAAGATG
*
139835 AATGTGCACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAACCAATT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAACCAATT
139900 ATTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
66 ATTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
139965 GGTTTGGCAGAACCAATCATTGAATTTGGAAGATG
131 GGTTTGGCAGAACCAATCATTGAATTTGGAAGATG
* *
140000 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGG-TTGGACAGAACCAA
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-TA-AACCAA
* * * *
140064 TCATTGAATTTGGAAGATGAATGTGCTC-ATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGA
64 TTATTGAATTTAGAAGATGAATTTGC-CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGA
* * *
140128 TCTGGTTTGGTA-AACCAATTATTGAATTTAGAAGATG
128 TCTGGTTTGGCAGAACCAATCATTGAATTTGGAAGATG
* * * *
140165 AATTTGC-CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTGTCTAATCTGATTTG
1 AATGTGCTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTG
140219 ATATAAAACC
Statistics
Matches: 527, Mismatches: 17, Indels: 9
0.95 0.03 0.02
Matches are distributed among these distances:
164 5 0.01
165 443 0.84
166 78 0.15
167 1 0.00
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.38
Consensus pattern (165 bp):
AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAACCAATT
ATTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
GGTTTGGCAGAACCAATCATTGAATTTGGAAGATG
Found at i:140000 original size:248 final size:246
Alignment explanation
Indices: 139505--140218 Score: 1157
Period size: 248 Copynumber: 2.9 Consensus size: 246
139495 GAATAAATGC
* *
139505 AATGTACTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTA-AACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
* * *
139569 TATTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
66 CATTGAATTTGGAAGATGAATGTGCC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
* * * *
139634 TGGTTTGGCAGAACCAATCATTGAATTTGGAAGATGAATGTGCTC-ATAGCATCTTCTGGAAGTG
130 TGGTTTGGTA-AACCAATTATTGAATTTAGAAGATGAATTTGC-CAATAGCATCTTCTGGAAGTG
* *
139698 TTCTTTGAGTTATCTGATCTGGTTTGGTAAACCAATTATTGAATTTAGAAGATG
193 TTCTTTGAGTTATCTGATCTGGTTTGGCAAACCAATCATTGAATTTAGAAGATG
* *
139752 AATTTGC-CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATGGTTTGGCAGAACCAA
1 AATGTGCTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAA
139816 TCATTGAATTTGGAAGATGAATGTGCACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
65 TCATTGAATTTGGAAGATGAATGTGC-CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
139881 CTGGTTTGGTAAACCAATTATTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGT
129 CTGGTTTGGTAAACCAATTATTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGT
*
139946 TCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATTTGGAAGATG
194 TCTTTGAGTTATCTGATCTGGTTTGGCA-AACCAATCATTGAATTTAGAAGATG
*
140000 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGG-TTGGACAGAACCAA
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-CAGAACCAA
*
140064 TCATTGAATTTGGAAGATGAATGTGCTCATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGAT
65 TCATTGAATTTGGAAGATGAATGTGC-CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
140129 CTGGTTTGGTAAACCAATTATTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGT
129 CTGGTTTGGTAAACCAATTATTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGT
* * *
140194 TCTTTGAGTTGTCTAATCTGATTTG
194 TCTTTGAGTTATCTGATCTGGTTTG
140219 ATATAAAACC
Statistics
Matches: 438, Mismatches: 22, Indels: 13
0.93 0.05 0.03
Matches are distributed among these distances:
246 2 0.00
247 131 0.30
248 303 0.69
249 2 0.00
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.38
Consensus pattern (246 bp):
AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
CATTGAATTTGGAAGATGAATGTGCCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
GGTTTGGTAAACCAATTATTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTC
TTTGAGTTATCTGATCTGGTTTGGCAAACCAATCATTGAATTTAGAAGATG
Found at i:141273 original size:113 final size:112
Alignment explanation
Indices: 140935--141726 Score: 1040
Period size: 113 Copynumber: 7.0 Consensus size: 112
140925 TAGCAAAGAT
* *
140935 TTAAATCCATCATTTAATGGATCAGCATTTCCAGAGAAAGTCCATAATGAGAAGAACTCATCTGA
1 TTAAATCCATCATTTGATGGATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
* *
141000 AGAAGGAAGAATAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGT
66 AGAA-GAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* * * * *
141048 TTAAATTCATCATTTGATGGATTAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCAT
1 TTAAATCCATCATTTGATGGATCAGCATTTCCAGAG-AAAGTTCATAATGAGAAGAA--C-TCAT
*
141112 CTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAATCTTTTGC
62 CTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* * *
141163 TCAAATCCATCATTTGATGAATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TTAAATCCATCATTTGATGGATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
* *
141228 AGAAGGAAGAATAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGT
66 AGAA-GAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* * * * *
141276 TTAAATTCATCATTTGATGGATTAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCAT
1 TTAAATCCATCATTTGATGGATCAGCATTTCCAGAG-AAAGTTCATAATGAGAAGAA--C-TCAT
*
141340 CTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAATCTTTTGC
62 CTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* * *
141391 TCAAATCCATCATTTGATGAATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TTAAATCCATCATTTGATGGATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
* * *
141456 AGAAGGAAGAATAAGCTCATAATGAGAAGAATTTGTTCAACCTTTTGT
66 AGAA-GAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* * * *
141504 TTAAATTCATCATTTGATGGATTAACATTGCCAG-GTAAAGTTCATAATGAGAAGAACTCGTCAT
1 TTAAATCCATCATTTGATGGATCAGCATTTCCAGAG-AAAGTTCATAATGAGAAGAA--C-TCAT
**
141568 CTGAAGAAGAAG-A-AA-TTCATAATGAGAAGAATTTGTTCAATTTTTTGC
62 CTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* * *
141616 TTAAATCCATCACTTGATGGAGCAGCTTTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGA
1 TTAAATCCATCATTTGATGGATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
* ** *
141680 AGAAGAAGAAGAAGTTCATAATAAGAAGAGCTTGTTCAACTTTTTGC
66 AGAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
141727 ATAATTCTAT
Statistics
Matches: 593, Mismatches: 66, Indels: 42
0.85 0.09 0.06
Matches are distributed among these distances:
108 16 0.03
109 2 0.00
110 2 0.00
111 48 0.08
112 83 0.14
113 224 0.38
114 1 0.00
115 179 0.30
116 38 0.06
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.30
Consensus pattern (112 bp):
TTAAATCCATCATTTGATGGATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
AGAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
Found at i:141334 original size:228 final size:228
Alignment explanation
Indices: 140937--141725 Score: 1399
Period size: 228 Copynumber: 3.5 Consensus size: 228
140927 GCAAAGATTT
* * * *
140937 AAATCCATCATTTAATGGATCAGCATTTCCAGAGAAAGTCCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCATTTGATGAATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
141002 AAGGAAGAATAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATTTGATG
66 AAGGAAGAATAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATTTGATG
141067 GATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGAAGAAGAAGTT
131 GATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGAAGAAGAAGTT
141132 CATAATGAGAAGAATTTGTTCAATCTTTTGCTC
196 CATAATGAGAAGAATTTGTTCAATCTTTTGCTC
141165 AAATCCATCATTTGATGAATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCATTTGATGAATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
141230 AAGGAAGAATAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATTTGATG
66 AAGGAAGAATAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATTTGATG
141295 GATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGAAGAAGAAGTT
131 GATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGAAGAAGAAGTT
141360 CATAATGAGAAGAATTTGTTCAATCTTTTGCTC
196 CATAATGAGAAGAATTTGTTCAATCTTTTGCTC
141393 AAATCCATCATTTGATGAATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCATTTGATGAATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
*
141458 AAGGAAGAATAAGCTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATTTGATG
66 AAGGAAGAATAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATTTGATG
*
141523 GATTAACATTGCCAGGTAAAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGAAG-A-AA-TT
131 GATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGAAGAAGAAGTT
* *
141585 CATAATGAGAAGAATTTGTTCAATTTTTTGCTT
196 CATAATGAGAAGAATTTGTTCAATCTTTTGCTC
* * *
141618 AAATCCATCACTTGATGGAGCAGCTTTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCATTTGATGAATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
* * ** *
141682 AA-GAAGAAGAAGTTCATAATAAGAAGAGCTTGTTCAACTTTTTG
66 AAGGAAGAATAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTG
141726 CATAATTCTA
Statistics
Matches: 544, Mismatches: 17, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
223 36 0.07
224 32 0.06
225 64 0.12
226 2 0.00
227 1 0.00
228 409 0.75
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (228 bp):
AAATCCATCATTTGATGAATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
AAGGAAGAATAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATTTGATG
GATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGAAGAAGAAGTT
CATAATGAGAAGAATTTGTTCAATCTTTTGCTC
Found at i:141845 original size:84 final size:82
Alignment explanation
Indices: 141691--141874 Score: 208
Period size: 84 Copynumber: 2.2 Consensus size: 82
141681 GAAGAAGAAG
* * * * * * *
141691 AAGTTCATAATAAGAAGAGCTTGTTCAACTTTTTGCATAATTCTATCACAGAAGGAGATAGATTA
1 AAGTTCATAATGAGAAGAGCTTATTCAACCTTTTGAATAACTCTATCACAGAAGGAAATAGATCA
*
141756 GCATCAGCCTTTCCAG-AGA
66 ACATCAGCC---CCAGCAGA
* * *
141775 AAGTTCATAATGAGAAGAGCTTATTTAACCTTTTGAATGACTCTATCACAGAAGGAAATAGGTCA
1 AAGTTCATAATGAGAAGAGCTTATTCAACCTTTTGAATAACTCTATCACAGAAGGAAATAGATCA
*
141840 ACATCATCCCCAGCAGA
66 ACATCAGCCCCAGCAGA
* *
141857 AGGTTCATAATGAAAAGA
1 AAGTTCATAATGAGAAGA
141875 ACTCATCTGA
Statistics
Matches: 85, Mismatches: 14, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
81 4 0.05
82 19 0.22
84 62 0.73
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.27
Consensus pattern (82 bp):
AAGTTCATAATGAGAAGAGCTTATTCAACCTTTTGAATAACTCTATCACAGAAGGAAATAGATCA
ACATCAGCCCCAGCAGA
Found at i:142045 original size:3 final size:3
Alignment explanation
Indices: 142039--142097 Score: 93
Period size: 3 Copynumber: 19.7 Consensus size: 3
142029 TTCCATTTAC
*
142039 TAT TAT TAT TATT TAT TAT TAT TAT TAT GAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
142085 TAT T-T TAT TAT TA
1 TAT TAT TAT TAT TA
142098 CAAACGGGCC
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
2 2 0.04
3 47 0.90
4 3 0.06
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:144693 original size:12 final size:12
Alignment explanation
Indices: 144678--144717 Score: 71
Period size: 12 Copynumber: 3.3 Consensus size: 12
144668 TTGCACGGAT
144678 ACGGATACGGGG
1 ACGGATACGGGG
144690 ACGGATACGGGG
1 ACGGATACGGGG
*
144702 ACGGAAACGGGG
1 ACGGATACGGGG
144714 ACGG
1 ACGG
144718 GAAACGATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.28, C:0.17, G:0.50, T:0.05
Consensus pattern (12 bp):
ACGGATACGGGG
Found at i:144959 original size:11 final size:12
Alignment explanation
Indices: 144932--144960 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
144922 TAATTCTAGA
144932 ATAATAAAATCC
1 ATAATAAAATCC
144944 ATAATAAAAT-C
1 ATAATAAAATCC
144955 ATAATA
1 ATAATA
144961 TTAAAGTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 7 0.41
12 10 0.59
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (12 bp):
ATAATAAAATCC
Found at i:150040 original size:20 final size:20
Alignment explanation
Indices: 150011--150049 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
150001 ATCGATCCGT
* *
150011 TTGTTTAAGGGGATTGATCA
1 TTGTTCAAGGAGATTGATCA
150031 TTGTTCAAGGAGATTGATC
1 TTGTTCAAGGAGATTGATC
150050 CTTTGGTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.08, G:0.28, T:0.38
Consensus pattern (20 bp):
TTGTTCAAGGAGATTGATCA
Found at i:150071 original size:41 final size:42
Alignment explanation
Indices: 150017--150095 Score: 101
Period size: 41 Copynumber: 1.9 Consensus size: 42
150007 CCGTTTGTTT
*
150017 AAGGGGATTGATCATTGTT-C-AAGGAGATTGATCCTTTGGTCA
1 AAGGGGATCGATCATT-TTGCTAA-GAGATTGATCCTTTGGTCA
*
150059 AAGGGG-TCGATCATTTTGCTAAGAGATTGATTCTTTG
1 AAGGGGATCGATCATTTTGCTAAGAGATTGATCCTTTG
150096 AGCAAAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
40 2 0.06
41 23 0.70
42 8 0.24
ACGTcount: A:0.25, C:0.11, G:0.28, T:0.35
Consensus pattern (42 bp):
AAGGGGATCGATCATTTTGCTAAGAGATTGATCCTTTGGTCA
Found at i:150661 original size:6 final size:6
Alignment explanation
Indices: 150650--150694 Score: 90
Period size: 6 Copynumber: 7.5 Consensus size: 6
150640 TAATTAAACG
150650 AATATA AATATA AATATA AATATA AATATA AATATA AATATA AAT
1 AATATA AATATA AATATA AATATA AATATA AATATA AATATA AAT
150695 TTAATTAAAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AATATA
Found at i:150749 original size:32 final size:32
Alignment explanation
Indices: 150713--150824 Score: 111
Period size: 32 Copynumber: 3.5 Consensus size: 32
150703 ACAAATCAGC
**
150713 ATAAACGAATGAATTATTGAACGTAAA-AGAAT
1 ATAAACGAACAAATTATTGAACGTAAACA-AAT
* *
150745 ATAAATC-AACAAATTATCGAACATAAACAAAT
1 ATAAA-CGAACAAATTATTGAACGTAAACAAAT
* * *
150777 ATAAATGAACAAATTATTGAACGTAAACATAC
1 ATAAACGAACAAATTATTGAACGTAAACAAAT
* *
150809 ATAAATGAGCAAATTA
1 ATAAACGAACAAATTA
150825 CAAAACATTC
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
32 65 0.97
33 2 0.03
ACGTcount: A:0.55, C:0.11, G:0.10, T:0.24
Consensus pattern (32 bp):
ATAAACGAACAAATTATTGAACGTAAACAAAT
Found at i:150775 original size:18 final size:17
Alignment explanation
Indices: 150752--150805 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 17
150742 AATATAAATC
150752 AACAAATTATCGAACATA
1 AACAAATTAT-GAACATA
*
150770 AACAAA-TAT-AA-ATG
1 AACAAATTATGAACATA
*
150784 AACAAATTATTGAACGTA
1 AACAAATTA-TGAACATA
150802 AACA
1 AACA
150806 TACATAAATG
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
14 8 0.28
15 4 0.14
16 1 0.03
17 5 0.17
18 11 0.38
ACGTcount: A:0.57, C:0.13, G:0.07, T:0.22
Consensus pattern (17 bp):
AACAAATTATGAACATA
Found at i:151897 original size:22 final size:22
Alignment explanation
Indices: 151871--151919 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
151861 AATTAATTGG
151871 TCAACGTAAAATATTTTCCTGA
1 TCAACGTAAAATATTTTCCTGA
* *
151893 TCAACGTAAAATATTTTCTTGG
1 TCAACGTAAAATATTTTCCTGA
151915 TCAAC
1 TCAAC
151920 AGAATTTCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (22 bp):
TCAACGTAAAATATTTTCCTGA
Found at i:152163 original size:32 final size:34
Alignment explanation
Indices: 152083--152165 Score: 84
Period size: 32 Copynumber: 2.5 Consensus size: 34
152073 TATTAATTAT
* * *
152083 TAAAATATTTCAAATATATTTATTAATATTTCTAA
1 TAAAATA-ATCAATTATATTTATTAATATTTATAA
* *
152118 TAATAGAAT--ATTATATTT-TTAATA-TTATAA
1 TAAAATAATCAATTATATTTATTAATATTTATAA
152148 TAAAATAATCAATTATAT
1 TAAAATAATCAATTATAT
152166 AATAATAATA
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
30 12 0.31
31 6 0.15
32 15 0.38
34 1 0.03
35 5 0.13
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.47
Consensus pattern (34 bp):
TAAAATAATCAATTATATTTATTAATATTTATAA
Found at i:152172 original size:53 final size:53
Alignment explanation
Indices: 152115--152223 Score: 125
Period size: 53 Copynumber: 2.1 Consensus size: 53
152105 TTAATATTTC
*
152115 TAATAATAGAATATTATATTTTTAATATTATAATAA-A-ATAATCAA-TTATATAA
1 TAATAATAGAAGATTATATTTTT-ATATTATAATAATATATAAT-AATTTAT-TAA
* * * *
152168 TAATAATATAAGATTTTATTTTTTTATTTTAATAATATATAATAATTTATTAA
1 TAATAATAGAAGATTATATTTTTATATTATAATAATATATAATAATTTATTAA
152221 TAA
1 TAA
152224 ATTTTATATT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
52 10 0.21
53 29 0.60
54 9 0.19
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.49
Consensus pattern (53 bp):
TAATAATAGAAGATTATATTTTTATATTATAATAATATATAATAATTTATTAA
Found at i:152288 original size:19 final size:18
Alignment explanation
Indices: 152264--152334 Score: 56
Period size: 19 Copynumber: 3.7 Consensus size: 18
152254 TAATATTATT
152264 ATATTATTAATAATGAATA
1 ATATTATTAATAAT-AATA
* *
152283 ATATTATTTAT-ATATTTA
1 ATATTATTAATAATA-ATA
152301 ATATTAATATAATAATCTAATA
1 ATATT-AT-TAATAA--TAATA
152323 ATATT-TTAATAA
1 ATATTATTAATAA
152335 AGATATTTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
17 1 0.02
18 9 0.21
19 18 0.43
20 4 0.10
21 1 0.02
22 7 0.17
23 2 0.05
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (18 bp):
ATATTATTAATAATAATA
Found at i:152309 original size:27 final size:27
Alignment explanation
Indices: 152229--152314 Score: 79
Period size: 27 Copynumber: 3.1 Consensus size: 27
152219 AATAAATTTT
* *
152229 ATATTATTTAT-TAATTTTATAGAAATA
1 ATATTATTTATAT-ATTTAATATAAATA
*
152256 ATATTA-TTATAT-TATTAATAATGAATA
1 ATATTATTTATATAT-TTAAT-ATAAATA
152283 ATATTATTTATATATTTAATATTAATATA
1 ATATTATTTATATATTTAATA-TAA-ATA
152312 ATA
1 ATA
152315 ATCTAATAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
25 1 0.02
26 8 0.17
27 19 0.40
28 13 0.27
29 7 0.15
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (27 bp):
ATATTATTTATATATTTAATATAAATA
Found at i:152355 original size:23 final size:23
Alignment explanation
Indices: 152329--152373 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
152319 AATAATATTT
152329 TAATAAAGATATTTAAAATATAC
1 TAATAAAGATATTTAAAATATAC
* * *
152352 TAATTAATATTTTTAAAATATA
1 TAATAAAGATATTTAAAATATA
152374 ATATAACACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
TAATAAAGATATTTAAAATATAC
Found at i:153263 original size:38 final size:38
Alignment explanation
Indices: 153212--153288 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
153202 AATTCGACTC
* *
153212 GATCGAGTCAGGTTGGGTGTTTTTAGAGGTTAGGTTCA
1 GATCGAGTCAGGTTGAGTGTTTTAAGAGGTTAGGTTCA
153250 GATCGAGTCAGGTTGAGTGTTTTAAGAGGTTAGGTTCA
1 GATCGAGTCAGGTTGAGTGTTTTAAGAGGTTAGGTTCA
153288 G
1 G
153289 GTCAGATTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.21, C:0.08, G:0.36, T:0.35
Consensus pattern (38 bp):
GATCGAGTCAGGTTGAGTGTTTTAAGAGGTTAGGTTCA
Found at i:154256 original size:64 final size:64
Alignment explanation
Indices: 154074--154249 Score: 316
Period size: 64 Copynumber: 2.8 Consensus size: 64
154064 GTACTTAAAA
*
154074 AAGGAAGTGTGAGGGCAAGTTCTGGGTCATGTAACACGGTTGTAGGCAAAGAATAGGAATACTT
1 AAGGAAGTGTGAGGGCAAGTTCTGGGTCATGTAACACGGTTATAGGCAAAGAATAGGAATACTT
154138 AAGGAAGTGTGAGGGCAAGTTCTGGGTCATGTAACACGGTTATAGGCAAAGAATAGGAATACTT
1 AAGGAAGTGTGAGGGCAAGTTCTGGGTCATGTAACACGGTTATAGGCAAAGAATAGGAATACTT
* * *
154202 AAGGAAGTGTTAGGGCAAGTTCTGGGTCGTGCAACACGGTTATAGGCA
1 AAGGAAGTGTGAGGGCAAGTTCTGGGTCATGTAACACGGTTATAGGCA
154250 GCGAATATAT
Statistics
Matches: 108, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
64 108 1.00
ACGTcount: A:0.32, C:0.12, G:0.33, T:0.23
Consensus pattern (64 bp):
AAGGAAGTGTGAGGGCAAGTTCTGGGTCATGTAACACGGTTATAGGCAAAGAATAGGAATACTT
Found at i:156461 original size:21 final size:20
Alignment explanation
Indices: 156415--156462 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
156405 TTCTATTTTC
*
156415 TTTCTTTTATTTTTCATAAT
1 TTTCTTTTATTTTTAATAAT
* *
156435 TCTTCTTTTGTGTTTTAATGAT
1 T-TTCTTTTAT-TTTTAATAAT
156457 TTTCTT
1 TTTCTT
156463 GTGGGTTTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 13 0.57
22 9 0.39
ACGTcount: A:0.15, C:0.10, G:0.06, T:0.69
Consensus pattern (20 bp):
TTTCTTTTATTTTTAATAAT
Found at i:158901 original size:31 final size:31
Alignment explanation
Indices: 158853--158916 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
158843 CGTATGGTAT
*
158853 TAAATATTATTTGATAATAAAAAAACTAAAA
1 TAAATATTAATTGATAATAAAAAAACTAAAA
* *
158884 TAAATTATTAATT-ATAATAAAAATATTAAAA
1 TAAA-TATTAATTGATAATAAAAAAACTAAAA
158915 TA
1 TA
158917 TTTTTTGGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 22 0.76
32 7 0.24
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (31 bp):
TAAATATTAATTGATAATAAAAAAACTAAAA
Found at i:159279 original size:16 final size:16
Alignment explanation
Indices: 159229--159279 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
159219 AAAAGTTATT
159229 AAATTATAAATATAAAA
1 AAATT-TAAATATAAAA
** **
159246 TTATTTAAATATTTAA
1 AAATTTAAATATAAAA
159262 AAATTTAAATATAAAA
1 AAATTTAAATATAAAA
159278 AA
1 AA
159280 TACTAAAACT
Statistics
Matches: 26, Mismatches: 8, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
16 23 0.88
17 3 0.12
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
AAATTTAAATATAAAA
Found at i:159819 original size:25 final size:25
Alignment explanation
Indices: 159790--159858 Score: 75
Period size: 25 Copynumber: 2.8 Consensus size: 25
159780 CAAAACATAG
*
159790 TAAGTTTTGATTAATCCAAAATTTA
1 TAAGTTTCGATTAATCCAAAATTTA
* ** * *
159815 TAAGTTTCGACTAATTTAAATTTTG
1 TAAGTTTCGATTAATCCAAAATTTA
*
159840 TAAGTCTCGATTAATCCAA
1 TAAGTTTCGATTAATCCAA
159859 TAAGAATGCT
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.42
Consensus pattern (25 bp):
TAAGTTTCGATTAATCCAAAATTTA
Found at i:160074 original size:17 final size:17
Alignment explanation
Indices: 160042--160084 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 17
160032 TTTTTAATAT
160042 GTATATTAATTTTTTTTA
1 GTAT-TTAATTTTTTTTA
160060 GTAATTTAATTTTTTTTA
1 GT-ATTTAATTTTTTTTA
160078 GTATTTA
1 GTATTTA
160085 TATATTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.21
18 17 0.71
19 2 0.08
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (17 bp):
GTATTTAATTTTTTTTA
Found at i:160120 original size:16 final size:17
Alignment explanation
Indices: 160079--160125 Score: 64
Period size: 16 Copynumber: 2.9 Consensus size: 17
160069 TTTTTTTTAG
160079 TATTTATATATTT-AAT
1 TATTTATATATTTAAAT
*
160095 T-TTTAAATATTTAAAT
1 TATTTATATATTTAAAT
160111 TATTT-TATATTTAAA
1 TATTTATATATTTAAA
160126 ATTTAAACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 10 0.37
16 14 0.52
17 3 0.11
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TATTTATATATTTAAAT
Found at i:160129 original size:7 final size:8
Alignment explanation
Indices: 160079--160132 Score: 51
Period size: 7 Copynumber: 7.0 Consensus size: 8
160069 TTTTTTTTAG
*
160079 TATTTATA
1 TATTTAAA
160087 TATTT-AA
1 TATTTAAA
*
160094 TTTTTAAA
1 TATTTAAA
160102 TATTTAAA
1 TATTTAAA
*
160110 TTATTT-TA
1 -TATTTAAA
160118 TATTTAAA
1 TATTTAAA
160126 -ATTTAAA
1 TATTTAAA
160133 CAAATTTTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
7 17 0.45
8 16 0.42
9 5 0.13
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (8 bp):
TATTTAAA
Found at i:161436 original size:20 final size:20
Alignment explanation
Indices: 161413--161458 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
161403 CAAAAGGTGG
*
161413 GTATCGATATT-TAGGGTTCA
1 GTATCGATATTGAAGGGTT-A
161433 GTATCGATATTGAAGGGTTA
1 GTATCGATATTGAAGGGTTA
161453 GTATCG
1 GTATCG
161459 GTACCAGTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 18 0.75
21 6 0.25
ACGTcount: A:0.26, C:0.09, G:0.28, T:0.37
Consensus pattern (20 bp):
GTATCGATATTGAAGGGTTA
Found at i:165903 original size:14 final size:14
Alignment explanation
Indices: 165895--165922 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
165885 ATAAATATAT
165895 TAAATTAAAATAAA
1 TAAATTAAAATAAA
165909 TAAATTAAAATAAA
1 TAAATTAAAATAAA
165923 GTTAGTTCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
TAAATTAAAATAAA
Found at i:165906 original size:19 final size:19
Alignment explanation
Indices: 165882--165922 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
165872 AAATTGGTGA
* *
165882 AAAATAAATATATTAAATT
1 AAAATAAATAAATTAAAAT
165901 AAAATAAATAAATTAAAAT
1 AAAATAAATAAATTAAAAT
165920 AAA
1 AAA
165923 GTTAGTTCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (19 bp):
AAAATAAATAAATTAAAAT
Found at i:166184 original size:31 final size:31
Alignment explanation
Indices: 166118--166191 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
166108 TTAACCCGTG
*
166118 GTGACCATATCTTAAATAAATAAATAAAAAA
1 GTGACAATATCTTAAATAAATAAATAAAAAA
* * * *
166149 GTGACTATATCTTAATTAAATAAA-AATGAAT
1 GTGACAATATCTTAAATAAATAAATAA-AAAA
166180 GTGACAATATCT
1 GTGACAATATCT
166192 CATGTATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 2 0.05
31 35 0.95
ACGTcount: A:0.50, C:0.09, G:0.09, T:0.31
Consensus pattern (31 bp):
GTGACAATATCTTAAATAAATAAATAAAAAA
Found at i:168989 original size:12 final size:14
Alignment explanation
Indices: 168970--169001 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
168960 TTGATTCCTG
168970 AGAAAATAT-AGAA
1 AGAAAATATAAGAA
168983 A-AAAATATAAGAA
1 AGAAAATATAAGAA
168996 AGAAAA
1 AGAAAA
169002 AAGTGCATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 7 0.41
13 6 0.35
14 4 0.24
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.12
Consensus pattern (14 bp):
AGAAAATATAAGAA
Found at i:170080 original size:25 final size:25
Alignment explanation
Indices: 170048--170095 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
170038 CATTTTCAAC
**
170048 ATATATATTCAACATCTATATATAT
1 ATATATATTCAACAAATATATATAT
170073 ATATATATTCAACAAATATATAT
1 ATATATATTCAACAAATATATAT
170096 TGAATAAGGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.42
Consensus pattern (25 bp):
ATATATATTCAACAAATATATATAT
Found at i:173849 original size:22 final size:21
Alignment explanation
Indices: 173823--173876 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
173813 CATAATATAG
*
173823 TTATATATTTTCTTTATATATT
1 TTATATATTTTCTTTA-AAATT
* *
173845 TTATATTAATATCTTTAAAATT
1 TTATA-TATTTTCTTTAAAATT
173867 TTATA-ATTTT
1 TTATATATTTT
173877 ATATTTTCTA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
20 3 0.12
22 14 0.54
23 9 0.35
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (21 bp):
TTATATATTTTCTTTAAAATT
Found at i:174714 original size:37 final size:37
Alignment explanation
Indices: 174673--174785 Score: 208
Period size: 37 Copynumber: 3.1 Consensus size: 37
174663 TATCAAGTTC
* *
174673 GACTCAATTAAAATTTAATTAATATTTTATTCAAATA
1 GACTCAATTAAAATTCAATTAATATTTGATTCAAATA
174710 GACTCAATTAAAATTCAATTAATATTTGATTCAAATA
1 GACTCAATTAAAATTCAATTAATATTTGATTCAAATA
174747 GACTCAATTAAAATTCAATTAATATTTGATTCAAATA
1 GACTCAATTAAAATTCAATTAATATTTGATTCAAATA
174784 GA
1 GA
174786 TTTAATTTGA
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 74 1.00
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.39
Consensus pattern (37 bp):
GACTCAATTAAAATTCAATTAATATTTGATTCAAATA
Found at i:177468 original size:18 final size:20
Alignment explanation
Indices: 177433--177469 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
177423 CACGGAATGT
177433 AAGATTACCAGTGAGAATAA
1 AAGATTACCAGTGAGAATAA
177453 AAGATTACC-G-GAGAATA
1 AAGATTACCAGTGAGAATA
177470 GGATTATTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 1 0.06
20 9 0.53
ACGTcount: A:0.49, C:0.11, G:0.22, T:0.19
Consensus pattern (20 bp):
AAGATTACCAGTGAGAATAA
Found at i:178207 original size:20 final size:20
Alignment explanation
Indices: 178147--178209 Score: 99
Period size: 20 Copynumber: 3.1 Consensus size: 20
178137 TTTCATTTCC
* *
178147 CTTGTTTTCATTATCTTAATC
1 CTTG-TTTCATTGTCTTAATT
178168 CTTGTTTCATTGTCTTAATT
1 CTTGTTTCATTGTCTTAATT
178188 CTTGTTTCATTGTCTTAATT
1 CTTGTTTCATTGTCTTAATT
178208 CT
1 CT
178210 AGCATATAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
20 36 0.90
21 4 0.10
ACGTcount: A:0.16, C:0.17, G:0.08, T:0.59
Consensus pattern (20 bp):
CTTGTTTCATTGTCTTAATT
Found at i:183471 original size:10 final size:10
Alignment explanation
Indices: 183458--183487 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
183448 AAAACAAAAA
183458 TCCCGGTTTT
1 TCCCGGTTTT
183468 TCCCGGTTTT
1 TCCCGGTTTT
*
183478 TTCCGGTTTT
1 TCCCGGTTTT
183488 CAGCCGGTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.27, G:0.20, T:0.53
Consensus pattern (10 bp):
TCCCGGTTTT
Found at i:183678 original size:10 final size:10
Alignment explanation
Indices: 183663--183702 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
183653 CGTTTAATGC
*
183663 CCGGTCAAAG
1 CCGGTCAACG
183673 CCGGTCAACG
1 CCGGTCAACG
**
183683 GTGGTCAACG
1 CCGGTCAACG
183693 CCGGTCAACG
1 CCGGTCAACG
183703 GTCAACGAGT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.23, C:0.33, G:0.33, T:0.12
Consensus pattern (10 bp):
CCGGTCAACG
Found at i:183690 original size:20 final size:20
Alignment explanation
Indices: 183665--183704 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
183655 TTTAATGCCC
183665 GGTCAAAGCCGGTCAACGGT
1 GGTCAAAGCCGGTCAACGGT
*
183685 GGTCAACGCCGGTCAACGGT
1 GGTCAAAGCCGGTCAACGGT
183705 CAACGAGTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.23, C:0.28, G:0.35, T:0.15
Consensus pattern (20 bp):
GGTCAAAGCCGGTCAACGGT
Found at i:183707 original size:17 final size:17
Alignment explanation
Indices: 183664--183709 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 17
183654 GTTTAATGCC
*
183664 CGGTCAAAGCCGGTCAA
1 CGGTCAACGCCGGTCAA
183681 CGGTGGTCAACGCCGGTCAA
1 C---GGTCAACGCCGGTCAA
183701 CGGTCAACG
1 CGGTCAACG
183710 AGTCAACGGG
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
17 9 0.36
20 16 0.64
ACGTcount: A:0.24, C:0.30, G:0.33, T:0.13
Consensus pattern (17 bp):
CGGTCAACGCCGGTCAA
Found at i:183739 original size:18 final size:18
Alignment explanation
Indices: 183716--183762 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
183706 AACGAGTCAA
183716 CGGGTCGGGTCAACAGGT
1 CGGGTCGGGTCAACAGGT
*
183734 CGGGTCGGGTCAGCAGGT
1 CGGGTCGGGTCAACAGGT
183752 CGGGTCGGGTC
1 CGGGTCGGGTC
183763 GGGTTATGAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.11, C:0.23, G:0.49, T:0.17
Consensus pattern (18 bp):
CGGGTCGGGTCAACAGGT
Found at i:194219 original size:46 final size:46
Alignment explanation
Indices: 194155--194246 Score: 148
Period size: 46 Copynumber: 2.0 Consensus size: 46
194145 AACATCATAG
* * *
194155 ATGTTTAGGAGTGTGAGCGTTCAATGTTGAAAGGTTGAGAGTTATC
1 ATGTTCAGGAGTGTGAGCGTTCAATGTTAAAAGGTAGAGAGTTATC
*
194201 ATGTTCAGGGGTGTGAGCGTTCAATGTTAAAAGGTAGAGAGTTATC
1 ATGTTCAGGAGTGTGAGCGTTCAATGTTAAAAGGTAGAGAGTTATC
194247 TTTGAACAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.27, C:0.08, G:0.33, T:0.33
Consensus pattern (46 bp):
ATGTTCAGGAGTGTGAGCGTTCAATGTTAAAAGGTAGAGAGTTATC
Found at i:194227 original size:23 final size:23
Alignment explanation
Indices: 194155--194228 Score: 62
Period size: 23 Copynumber: 3.2 Consensus size: 23
194145 AACATCATAG
* *
194155 ATGTTTAGGAGTGTGAGCGTTCA
1 ATGTTCAGGGGTGTGAGCGTTCA
* ** *
194178 ATGTTGAAAGGT-TGAGAGTT-A
1 ATGTTCAGGGGTGTGAGCGTTCA
194199 TCATGTTCAGGGGTGTGAGCGTTCA
1 --ATGTTCAGGGGTGTGAGCGTTCA
194224 ATGTT
1 ATGTT
194229 AAAAGGTAGA
Statistics
Matches: 38, Mismatches: 9, Indels: 8
0.69 0.16 0.15
Matches are distributed among these distances:
21 1 0.03
22 7 0.18
23 22 0.58
24 7 0.18
25 1 0.03
ACGTcount: A:0.23, C:0.08, G:0.34, T:0.35
Consensus pattern (23 bp):
ATGTTCAGGGGTGTGAGCGTTCA
Found at i:195501 original size:26 final size:27
Alignment explanation
Indices: 195461--195511 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
195451 AGACAATATT
195461 TTTTTCAAAAATATATAAA-ATTTATAA
1 TTTTTCAAAAATATA-AAATATTTATAA
*
195488 TTTTT-AAAATTATAAAATATTTAT
1 TTTTTCAAAAATATAAAATATTTAT
195512 TATTATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 3 0.14
26 14 0.64
27 5 0.23
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (27 bp):
TTTTTCAAAAATATAAAATATTTATAA
Found at i:195522 original size:26 final size:25
Alignment explanation
Indices: 195467--195522 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 25
195457 TATTTTTTTC
*
195467 AAAAATATATAAAATTTATAATTTT
1 AAAAATATATAAAATTTATAATTAT
* *
195492 TAAAAT-TATAAAATATTTATTATTAT
1 AAAAATATAT-AAA-ATTTATAATTAT
195518 AAAAA
1 AAAAA
195523 ATAAACTTGT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
24 3 0.12
25 8 0.32
26 14 0.56
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (25 bp):
AAAAATATATAAAATTTATAATTAT
Found at i:203799 original size:22 final size:24
Alignment explanation
Indices: 203774--203818 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
203764 AAGGAAGACG
*
203774 AACTTT-TAAAATTTTA-GGAGTT
1 AACTTTATAAAATTCTATGGAGTT
203796 AACTTTATAAAATTCTATGGAGT
1 AACTTTATAAAATTCTATGGAGT
203819 GAAAGTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 6 0.30
23 9 0.45
24 5 0.25
ACGTcount: A:0.38, C:0.07, G:0.13, T:0.42
Consensus pattern (24 bp):
AACTTTATAAAATTCTATGGAGTT
Found at i:209516 original size:20 final size:22
Alignment explanation
Indices: 209487--209526 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
209477 TAATTTGTTA
209487 TTTAACTTTTATTT-TAAAAAT
1 TTTAACTTTTATTTATAAAAAT
209508 TTTAA-TTTTATTTATAAAA
1 TTTAACTTTTATTTATAAAA
209527 TTTGAATCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTAACTTTTATTTATAAAAAT
Done.