Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008662.1 Hibiscus syriacus cultivar Beakdansim tig00111662_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: 1703488
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 8
Found at i:8401 original size:60 final size:60
Alignment explanation
Indices: 8336--8472 Score: 175
Period size: 60 Copynumber: 2.3 Consensus size: 60
8326 AACATAATGA
* * *
8336 ATAATCAGGTGACCATTTTGTAACTTTTAATAGTCGAATGACTTAACAAAACAATATTTT
1 ATAATCAGGTGACCATTTTGTAACTTTTAATAGTCGAAGGACTTAACAAAACAACATTCT
** * * *
8396 ATAATCAAATGATCATTTTGTAACTTTTAATAGTCGAGGGACTTAATAAAACAACATTCT
1 ATAATCAGGTGACCATTTTGTAACTTTTAATAGTCGAAGGACTTAACAAAACAACATTCT
* * *
8456 ATAGTCGGGAGACCATT
1 ATAATCAGGTGACCATT
8473 AGTGTAATTT
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
60 63 1.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (60 bp):
ATAATCAGGTGACCATTTTGTAACTTTTAATAGTCGAAGGACTTAACAAAACAACATTCT
Found at i:9888 original size:9 final size:9
Alignment explanation
Indices: 9874--9898 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
9864 TTAGATTAAA
9874 TTTAATTTT
1 TTTAATTTT
9883 TTTAATTTT
1 TTTAATTTT
9892 TTTAATT
1 TTTAATT
9899 AAATACCTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTAATTTT
Found at i:10686 original size:16 final size:18
Alignment explanation
Indices: 10653--10710 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 18
10643 TCAATGGTTT
10653 TAATTTC-A-ATACTTTTA
1 TAATTTCTATATA-TTTTA
10670 TAATTTCT-T-TATTTTA
1 TAATTTCTATATATTTTA
* *
10686 TAGTTACTATATATTTCTA
1 TAATTTCTATATATTT-TA
10705 TAATTT
1 TAATTT
10711 TCTTAATTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
16 11 0.34
17 10 0.31
18 5 0.16
19 6 0.19
ACGTcount: A:0.31, C:0.09, G:0.02, T:0.59
Consensus pattern (18 bp):
TAATTTCTATATATTTTA
Found at i:15092 original size:25 final size:26
Alignment explanation
Indices: 15064--15114 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
15054 ATCATGTTGC
*
15064 CATTATTGGGCACTAATAATG-GTGT
1 CATTATTGGGCACCAATAATGCGTGT
*
15089 CATTATTGTGCACCAATAATGCGTGT
1 CATTATTGGGCACCAATAATGCGTGT
15115 AAGGGCGACA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (26 bp):
CATTATTGGGCACCAATAATGCGTGT
Found at i:17879 original size:27 final size:27
Alignment explanation
Indices: 17847--17919 Score: 119
Period size: 27 Copynumber: 2.7 Consensus size: 27
17837 ATTAATATCC
17847 ATCACATTCATTCAAATATTGATATTA
1 ATCACATTCATTCAAATATTGATATTA
* *
17874 ATCACATTAATTCAACTATTGATATTA
1 ATCACATTCATTCAAATATTGATATTA
*
17901 ATCACATTCATTAAAATAT
1 ATCACATTCATTCAAATAT
17920 AGCGTCAACA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (27 bp):
ATCACATTCATTCAAATATTGATATTA
Found at i:20887 original size:33 final size:33
Alignment explanation
Indices: 20849--20911 Score: 126
Period size: 33 Copynumber: 1.9 Consensus size: 33
20839 TAAAGTTTCA
20849 AAAAATGTAAATATATTAACAATATTTTTTTAT
1 AAAAATGTAAATATATTAACAATATTTTTTTAT
20882 AAAAATGTAAATATATTAACAATATTTTTT
1 AAAAATGTAAATATATTAACAATATTTTTT
20912 AACATTTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.44
Consensus pattern (33 bp):
AAAAATGTAAATATATTAACAATATTTTTTTAT
Found at i:21387 original size:22 final size:22
Alignment explanation
Indices: 21362--21415 Score: 65
Period size: 25 Copynumber: 2.4 Consensus size: 22
21352 ATGGTGCCAT
21362 TATTTTTT-GTCATTATAATAAA
1 TATTTTTTCGTCATTATAAT-AA
*
21384 TATTATTTTTCGTCATTATAATTA
1 TA-T-TTTTTCGTCATTATAATAA
21408 TATTTTTT
1 TATTTTTT
21416 TAACATTTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
22 7 0.25
23 2 0.07
24 8 0.29
25 11 0.39
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.61
Consensus pattern (22 bp):
TATTTTTTCGTCATTATAATAA
Found at i:23755 original size:42 final size:41
Alignment explanation
Indices: 23666--23837 Score: 127
Period size: 40 Copynumber: 4.2 Consensus size: 41
23656 TATACAAATG
*
23666 CCACTAAAGTA-TAGTATTTAGCGGTGTTTATATAAAAACG
1 CCACTAAAGTACTAGTATTTAGCGGTGTTTATATAAAAACA
* * * * * *
23706 TCACTAAAGTACAAGTATTTAGCGGCGTTTCTGCTTAAAACA
1 CCACTAAAGTACTAGTATTTAGCGGTGTTTAT-ATAAAAACA
** *
23748 CCACTAAAGTACTAGGCTTTAGCGGTGTTTGTCA-AAAAA-A
1 CCACTAAAGTACTAGTATTTAGCGGTGTTTAT-ATAAAAACA
* * * *** * *
23788 CCACTGAAGTGCTAGGT-TTTACCGACATTTGTTTAAAAACA
1 CCACTAAAGTACTA-GTATTTAGCGGTGTTTATATAAAAACA
23829 CCACTAAAG
1 CCACTAAAG
23838 AACGATTCTA
Statistics
Matches: 102, Mismatches: 25, Indels: 9
0.75 0.18 0.07
Matches are distributed among these distances:
40 39 0.38
41 31 0.30
42 32 0.31
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (41 bp):
CCACTAAAGTACTAGTATTTAGCGGTGTTTATATAAAAACA
Found at i:26065 original size:55 final size:55
Alignment explanation
Indices: 25987--26217 Score: 340
Period size: 55 Copynumber: 4.2 Consensus size: 55
25977 ATGTATGGTT
* *
25987 AATTTCCGTATGGGTACTATGTGTGCAAAATTAAGAAATTCATACTAAGTGTATG
1 AATTTTCGTATGGGCACTATGTGTGCAAAATTAAGAAATTCATACTAAGTGTATG
* *
26042 AATTTTCATATGGGCGCTATGTGTGCAAAATTAAGAAATTCATACTAAGTGTATG
1 AATTTTCGTATGGGCACTATGTGTGCAAAATTAAGAAATTCATACTAAGTGTATG
*
26097 AATTTTCGTATGGGCACTATGTGTGTAAAATTAAGAAATTCATACTAAGTGTATG
1 AATTTTCGTATGGGCACTATGTGTGCAAAATTAAGAAATTCATACTAAGTGTATG
* * * *
26152 AATTTTCGTATGGGAACTATATGTGCAAACA-TAAGAAATTCATAATAAG-GAAGTG
1 AATTTTCGTATGGGCACTATGTGTGCAAA-ATTAAGAAATTCATACTAAGTGTA-TG
*
26207 AATTTTTGTAT
1 AATTTTCGTAT
26218 TGCTAATGGG
Statistics
Matches: 161, Mismatches: 13, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
54 2 0.01
55 158 0.98
56 1 0.01
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.35
Consensus pattern (55 bp):
AATTTTCGTATGGGCACTATGTGTGCAAAATTAAGAAATTCATACTAAGTGTATG
Found at i:40825 original size:46 final size:46
Alignment explanation
Indices: 40773--40916 Score: 115
Period size: 46 Copynumber: 3.2 Consensus size: 46
40763 GCATCTTCAA
40773 TCTGTCGAGTTCCTTACTAGAGATAGCATAGGGCACCTTAGTAGAC
1 TCTGTCGAGTTCCTTACTAGAGATAGCATAGGGCACCTTAGTAGAC
* ** * * *
40819 TCTGTCG-G--GCAGACAAG-GCATAG-A-AGGAAG-ACTACTATGAG-AAAA
1 TCTGTCGAGTTCCTTACTAGAG-ATAGCATAGG--GCAC--CT-T-AGTAGAC
40864 TCTGTCGAGTTCCTTACTAGAGATAGCATAGGGCACCTTAGTAGAC
1 TCTGTCGAGTTCCTTACTAGAGATAGCATAGGGCACCTTAGTAGAC
40910 TCTGTCG
1 TCTGTCG
40917 GGCAGACAAG
Statistics
Matches: 71, Mismatches: 12, Indels: 30
0.63 0.11 0.27
Matches are distributed among these distances:
41 3 0.04
42 4 0.06
43 10 0.14
44 2 0.03
45 13 0.18
46 20 0.28
47 2 0.03
48 10 0.14
49 4 0.06
50 3 0.04
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (46 bp):
TCTGTCGAGTTCCTTACTAGAGATAGCATAGGGCACCTTAGTAGAC
Found at i:40926 original size:91 final size:91
Alignment explanation
Indices: 40771--40952 Score: 355
Period size: 91 Copynumber: 2.0 Consensus size: 91
40761 GGGCATCTTC
40771 AATCTGTCGAGTTCCTTACTAGAGATAGCATAGGGCACCTTAGTAGACTCTGTCGGGCAGACAAG
1 AATCTGTCGAGTTCCTTACTAGAGATAGCATAGGGCACCTTAGTAGACTCTGTCGGGCAGACAAG
40836 GCATAGAAGGAAGACTACTATGAGAA
66 GCATAGAAGGAAGACTACTATGAGAA
40862 AATCTGTCGAGTTCCTTACTAGAGATAGCATAGGGCACCTTAGTAGACTCTGTCGGGCAGACAAG
1 AATCTGTCGAGTTCCTTACTAGAGATAGCATAGGGCACCTTAGTAGACTCTGTCGGGCAGACAAG
*
40927 GCATAGAAGGAAGACTACTCTGAGAA
66 GCATAGAAGGAAGACTACTATGAGAA
40953 GTAGGCTTAG
Statistics
Matches: 90, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 90 1.00
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.22
Consensus pattern (91 bp):
AATCTGTCGAGTTCCTTACTAGAGATAGCATAGGGCACCTTAGTAGACTCTGTCGGGCAGACAAG
GCATAGAAGGAAGACTACTATGAGAA
Found at i:41516 original size:55 final size:56
Alignment explanation
Indices: 41364--41524 Score: 229
Period size: 56 Copynumber: 2.9 Consensus size: 56
41354 GTGGACAACC
* *
41364 CTATGTGTGCAAAATTAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGGCA
1 CTATGTGTGCAAAATTAAGAAATTCATACTAAGTGTATGAATTTTCGTATGGGGAA
41420 CTATGTGTGCAAAATTAAGAAATTCATACTAAGTGTATGAATTTTCGTAT-GGGAA
1 CTATGTGTGCAAAATTAAGAAATTCATACTAAGTGTATGAATTTTCGTATGGGGAA
* * * *
41475 CTATATGTGCAAACA-TAAGAAATTCATAATAAG-GAAGTGAATTTTTGTAT
1 CTATGTGTGCAAA-ATTAAGAAATTCATACTAAGTGTA-TGAATTTTCGTAT
41525 TGGTAATGTG
Statistics
Matches: 97, Mismatches: 6, Indels: 5
0.90 0.06 0.05
Matches are distributed among these distances:
54 2 0.02
55 45 0.46
56 50 0.52
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.34
Consensus pattern (56 bp):
CTATGTGTGCAAAATTAAGAAATTCATACTAAGTGTATGAATTTTCGTATGGGGAA
Found at i:44267 original size:11 final size:11
Alignment explanation
Indices: 44251--44275 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
44241 ACCCAGAGTG
44251 AGAAAAGAAAA
1 AGAAAAGAAAA
44262 AGAAAAGAAAA
1 AGAAAAGAAAA
44273 AGA
1 AGA
44276 TGGAGAGAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (11 bp):
AGAAAAGAAAA
Found at i:47968 original size:33 final size:32
Alignment explanation
Indices: 47921--48065 Score: 123
Period size: 33 Copynumber: 4.4 Consensus size: 32
47911 AAATTCAAGA
* * *
47921 TCGGGTCGGATTTTTTAAAGTTTTATATTCGGG
1 TCGGGTTGGGTTTTTT-AAGTTTGATATTCGGG
* * * * *
47954 TCGGGTAGGGTTTTTT--TTTTAAAAAAATCGGG
1 TCGGGTTGGGTTTTTTAAGTTT--GATATTCGGG
**
47986 ATCGGGTTGGGTTTTTTAAGTTTGATATTCTTG
1 -TCGGGTTGGGTTTTTTAAGTTTGATATTCGGG
*
48019 TCGGGTTGGGTTTTTTTAAGTGTGATATTCGGG
1 TCGGGTTGGG-TTTTTTAAGTTTGATATTCGGG
48052 TCGGGTTCGGGTTT
1 TCGGGTT-GGGTTT
48066 AAGGTGAAAA
Statistics
Matches: 89, Mismatches: 16, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
30 3 0.03
32 17 0.19
33 63 0.71
34 3 0.03
35 3 0.03
ACGTcount: A:0.16, C:0.08, G:0.31, T:0.46
Consensus pattern (32 bp):
TCGGGTTGGGTTTTTTAAGTTTGATATTCGGG
Found at i:48007 original size:65 final size:65
Alignment explanation
Indices: 47901--48035 Score: 173
Period size: 65 Copynumber: 2.1 Consensus size: 65
47891 TCGGGTCAGA
* *
47901 TTTTTTTTAAAAATTCAAGATCGGGTCGGATTTTTTAAAGTTTTATATTCGGGTCGGGTAGGGTT
1 TTTTTTTTAAAAAATCAAGATCGGGTCGGATTTTTTAAAGTTTGATATTCGGGTCGGGTAGGGTT
** * * ** *
47966 TTTTTTTTAAAAAAATCGGGATCGGGTTGGGTTTTTT-AAGTTTGATATTCTTGTCGGGTTGGGT
1 TTTTTTTT-AAAAAATCAAGATCGGGTCGGATTTTTTAAAGTTTGATATTCGGGTCGGGTAGGGT
48030 T
65 T
48031 TTTTT
1 TTTTT
48036 AAGTGTGATA
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
65 37 0.62
66 23 0.38
ACGTcount: A:0.20, C:0.07, G:0.25, T:0.48
Consensus pattern (65 bp):
TTTTTTTTAAAAAATCAAGATCGGGTCGGATTTTTTAAAGTTTGATATTCGGGTCGGGTAGGGTT
Found at i:50555 original size:19 final size:19
Alignment explanation
Indices: 50531--50569 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
50521 ATGACCAACA
* *
50531 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCAATCTCT
50550 AAATCGCAACGCAATCTCT
1 AAATCGCAACGCAATCTCT
50569 A
1 A
50570 GTATCACAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.36, C:0.28, G:0.13, T:0.23
Consensus pattern (19 bp):
AAATCGCAACGCAATCTCT
Found at i:50676 original size:20 final size:20
Alignment explanation
Indices: 50653--50726 Score: 105
Period size: 20 Copynumber: 3.6 Consensus size: 20
50643 GAATATGTAA
50653 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
**
50673 ATCGCAACGCGATAAT-ACAT
1 ATCGCAACGCGATTCTGAC-T
50693 AATCGCAACGCGATTCTGACT
1 -ATCGCAACGCGATTCTGACT
50714 ATCGCAACGCGAT
1 ATCGCAACGCGAT
50727 AATACAAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
19 2 0.04
20 28 0.60
21 15 0.32
22 2 0.04
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:50697 original size:41 final size:41
Alignment explanation
Indices: 50651--50748 Score: 178
Period size: 41 Copynumber: 2.4 Consensus size: 41
50641 GCGAATATGT
50651 AAATCGCAACGCGATTCTGACTATCGCAACGCGATAATACA
1 AAATCGCAACGCGATTCTGACTATCGCAACGCGATAATACA
*
50692 TAATCGCAACGCGATTCTGACTATCGCAACGCGATAATACA
1 AAATCGCAACGCGATTCTGACTATCGCAACGCGATAATACA
*
50733 AAATCGCAATGCGATT
1 AAATCGCAACGCGATT
50749 TTCAAAGCGC
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (41 bp):
AAATCGCAACGCGATTCTGACTATCGCAACGCGATAATACA
Found at i:50699 original size:21 final size:21
Alignment explanation
Indices: 50652--50747 Score: 92
Period size: 20 Copynumber: 4.7 Consensus size: 21
50642 CGAATATGTA
**
50652 AATCGCAACGCGATTCTGACT
1 AATCGCAACGCGATAATGACT
50673 -ATCGCAACGCGATAAT-ACAT
1 AATCGCAACGCGATAATGAC-T
**
50693 AATCGCAACGCGATTCTGACT
1 AATCGCAACGCGATAATGACT
*
50714 -ATCGCAACGCGATAAT-ACAA
1 AATCGCAACGCGATAATGAC-T
*
50734 AATCGCAATGCGAT
1 AATCGCAACGCGAT
50748 TTTCAAAGCG
Statistics
Matches: 62, Mismatches: 8, Indels: 10
0.77 0.10 0.12
Matches are distributed among these distances:
19 4 0.06
20 29 0.47
21 27 0.44
22 2 0.03
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (21 bp):
AATCGCAACGCGATAATGACT
Found at i:51332 original size:20 final size:19
Alignment explanation
Indices: 51292--51396 Score: 67
Period size: 20 Copynumber: 5.6 Consensus size: 19
51282 AAAATCGCAA
* *
51292 CGATAGTCAAATTCGCATTG
1 CGATAGTC-ATTTCGCGTTG
*
51312 CGATAGTCATTTTCGTGTTG
1 CGATAGTCA-TTTCGCGTTG
**
51332 CGATTTTCATTTCGCGTTG
1 CGATAGTCATTTCGCGTTG
* *
51351 TGAT--T-A--TCTCGTTG
1 CGATAGTCATTTCGCGTTG
*
51365 CGATAGTCAAATTCGCGTTG
1 CGATAGTC-ATTTCGCGTTG
*
51385 CAATAGTCATTT
1 CGATAGTCATTT
51397 TCGTGTTACG
Statistics
Matches: 66, Mismatches: 12, Indels: 15
0.71 0.13 0.16
Matches are distributed among these distances:
14 10 0.15
16 2 0.03
17 1 0.02
18 1 0.02
19 16 0.24
20 36 0.55
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.40
Consensus pattern (19 bp):
CGATAGTCATTTCGCGTTG
Found at i:52300 original size:20 final size:20
Alignment explanation
Indices: 52254--52300 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
52244 AAATTCAGTA
*
52254 TTGCGACAGTCAGAATCGCG
1 TTGCGATAGTCAGAATCGCG
52274 TTGCGATAGTCAGAATCGCG
1 TTGCGATAGTCAGAATCGCG
52294 TTGCGAT
1 TTGCGAT
52301 TTACATATTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCGCG
Found at i:54103 original size:16 final size:17
Alignment explanation
Indices: 54082--54126 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
54072 CAGACAACCA
54082 AAAATACTAATTTTA-G
1 AAAATACTAATTTTATG
* *
54098 AAAATA-TTATTTTATT
1 AAAATACTAATTTTATG
54114 AAAATACTAATTT
1 AAAATACTAATTT
54127 ATTTAAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
15 7 0.29
16 12 0.50
17 5 0.21
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (17 bp):
AAAATACTAATTTTATG
Found at i:54127 original size:16 final size:16
Alignment explanation
Indices: 54082--54140 Score: 57
Period size: 16 Copynumber: 3.7 Consensus size: 16
54072 CAGACAACCA
*
54082 AAAATACTAATTT-TAG
1 AAAATACTAATTTAT-T
* *
54098 AAAATATTATTTTATT
1 AAAATACTAATTTATT
54114 AAAATACTAATTTATT
1 AAAATACTAATTTATT
* *
54130 TAAATAATAAT
1 AAAATACTAAT
54141 ATTAATTATT
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
16 34 0.97
17 1 0.03
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (16 bp):
AAAATACTAATTTATT
Found at i:54130 original size:21 final size:20
Alignment explanation
Indices: 54103--54157 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 20
54093 TTTAGAAAAT
54103 ATTATTTTATTAAAATACTA
1 ATTATTTTATTAAAATACTA
* * *
54123 ATTTATTTAAATAATAATATTA
1 A-TTATTTTATTAA-AATACTA
54145 ATTA-TTTATTAAA
1 ATTATTTTATTAAA
54158 CTAAAAACAT
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
19 1 0.04
20 7 0.25
21 13 0.46
22 7 0.25
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (20 bp):
ATTATTTTATTAAAATACTA
Found at i:54169 original size:25 final size:25
Alignment explanation
Indices: 54123--54202 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
54113 TAAAATACTA
* *
54123 ATTTATTTAAATAATAATATTA-ATT
1 ATTTA-TTAAATAAAAACATTATATT
54148 ATTTATTAAACTAAAAACATTATATT
1 ATTTATTAAA-TAAAAACATTATATT
* *
54174 A-GTATTAAATACATAAA-ATAATATT
1 ATTTATTAAATA-A-AAACATTATATT
54199 ATTT
1 ATTT
54203 TCAGTATTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
24 7 0.16
25 30 0.67
26 8 0.18
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.45
Consensus pattern (25 bp):
ATTTATTAAATAAAAACATTATATT
Found at i:55400 original size:20 final size:20
Alignment explanation
Indices: 55375--55440 Score: 73
Period size: 20 Copynumber: 3.3 Consensus size: 20
55365 AATATGTAAA
55375 TCGCAATACAGAAGTCAAAT
1 TCGCAATACAGAAGTCAAAT
*
55395 TCGCAATGC-GATAGTCAAAAT
1 TCGCAATACAGA-AGTC-AAAT
* *
55416 TAGCAACACA-AAGTCAAAT
1 TCGCAATACAGAAGTCAAAT
55435 TCGCAA
1 TCGCAA
55441 CGCGGAATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
19 11 0.29
20 16 0.42
21 11 0.29
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.20
Consensus pattern (20 bp):
TCGCAATACAGAAGTCAAAT
Found at i:55673 original size:16 final size:15
Alignment explanation
Indices: 55638--55676 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
55628 TCCCCATCTC
*
55638 TAATTTTTTTTTACA
1 TAATTTTTTTATACA
*
55653 TAATTTTATTTATATA
1 TAATTTT-TTTATACA
55669 TAATTTTT
1 TAATTTTT
55677 CAATGATTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (15 bp):
TAATTTTTTTATACA
Found at i:56250 original size:12 final size:12
Alignment explanation
Indices: 56229--56262 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
56219 ACCACATTTC
*
56229 CAATACCAAACA
1 CAATATCAAACA
56241 CAATATCAAACA
1 CAATATCAAACA
*
56253 CAATCTCAAA
1 CAATATCAAA
56263 ACCCACATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:56439 original size:24 final size:24
Alignment explanation
Indices: 56388--56441 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
56378 GTATTCGAAA
* *
56388 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGGCAATACCCAGAC
* * *
56412 TTTGATCTTGGGGAATACTCAGAT
1 TTTGATCTTGGGCAATACCCAGAC
56436 TTTGAT
1 TTTGAT
56442 GATGTGATGG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.39
Consensus pattern (24 bp):
TTTGATCTTGGGCAATACCCAGAC
Found at i:56634 original size:3 final size:3
Alignment explanation
Indices: 56616--56649 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
56606 ATATAACCCT
* *
56616 GAA GAA TAA AAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
56650 TTCCCGAAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.03
Consensus pattern (3 bp):
GAA
Found at i:59105 original size:20 final size:20
Alignment explanation
Indices: 59080--59136 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
59070 ACAGAAAATC
* *
59080 GCGTTGCGAATTTGGCTTTT
1 GCGTTGCGAATTTGACTTTG
59100 GCGTTGCGAATTTGACTTTG
1 GCGTTGCGAATTTGACTTTG
* *
59120 GCATTGGGAATTTGACT
1 GCGTTGCGAATTTGACT
59137 ATCGCAATGC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.16, C:0.14, G:0.30, T:0.40
Consensus pattern (20 bp):
GCGTTGCGAATTTGACTTTG
Found at i:59620 original size:18 final size:18
Alignment explanation
Indices: 59599--59635 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
59589 ATGTAATTGG
59599 AGTTTGAATTTAAATTTC
1 AGTTTGAATTTAAATTTC
* *
59617 AGTTTGAGTTTGAATTTC
1 AGTTTGAATTTAAATTTC
59635 A
1 A
59636 ATATAAATTT
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:0.05, G:0.16, T:0.49
Consensus pattern (18 bp):
AGTTTGAATTTAAATTTC
Found at i:59992 original size:39 final size:39
Alignment explanation
Indices: 59949--60035 Score: 129
Period size: 39 Copynumber: 2.2 Consensus size: 39
59939 TTCGATGTTC
*
59949 ATCAAAATCCAAAGCCCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCCCATATGGTACCAAGCAAAAGGAA
* * * *
59988 ATCAAATTCCAAATCTCATATGGTACTAAGCAAAAGGAA
1 ATCAAAATCCAAAGCCCATATGGTACCAAGCAAAAGGAA
60027 ATCAAAATC
1 ATCAAAATC
60036 TACAACTTGA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.47, C:0.21, G:0.14, T:0.18
Consensus pattern (39 bp):
ATCAAAATCCAAAGCCCATATGGTACCAAGCAAAAGGAA
Found at i:60428 original size:28 final size:28
Alignment explanation
Indices: 60396--60472 Score: 102
Period size: 28 Copynumber: 2.8 Consensus size: 28
60386 ATAATTCTTA
*
60396 TTTACACATCAAATTAAACAAATCAACT
1 TTTACAAATCAAATTAAACAAATCAACT
* **
60424 TTTACAAATCAACTTTTACAAATCAACT
1 TTTACAAATCAAATTAAACAAATCAACT
*
60452 TTTACAAATC-AATTAATCAAA
1 TTTACAAATCAAATTAAACAAA
60473 AAATAAATCT
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
27 7 0.17
28 34 0.83
ACGTcount: A:0.48, C:0.19, G:0.00, T:0.32
Consensus pattern (28 bp):
TTTACAAATCAAATTAAACAAATCAACT
Found at i:60430 original size:14 final size:14
Alignment explanation
Indices: 60413--60463 Score: 102
Period size: 14 Copynumber: 3.6 Consensus size: 14
60403 ATCAAATTAA
60413 ACAAATCAACTTTT
1 ACAAATCAACTTTT
60427 ACAAATCAACTTTT
1 ACAAATCAACTTTT
60441 ACAAATCAACTTTT
1 ACAAATCAACTTTT
60455 ACAAATCAA
1 ACAAATCAA
60464 TTAATCAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 37 1.00
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.31
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:61209 original size:31 final size:31
Alignment explanation
Indices: 61171--61295 Score: 189
Period size: 31 Copynumber: 4.0 Consensus size: 31
61161 CCCGAATGAC
* * *
61171 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
61202 CAGTCCATATGTCCCGAAGATCATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
61233 CAGTTCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
61264 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
61295 C
1 C
61296 CCTCGACCCT
Statistics
Matches: 86, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
31 85 0.99
32 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:65153 original size:16 final size:18
Alignment explanation
Indices: 65120--65153 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
65110 TATAATATTT
65120 CATATAACATAAAGCATA
1 CATATAACATAAAGCATA
65138 CATA-AACATAAA-CATA
1 CATATAACATAAAGCATA
65154 TACCATCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 8 0.50
18 4 0.25
ACGTcount: A:0.59, C:0.18, G:0.03, T:0.21
Consensus pattern (18 bp):
CATATAACATAAAGCATA
Found at i:65425 original size:31 final size:31
Alignment explanation
Indices: 65387--65511 Score: 207
Period size: 31 Copynumber: 4.0 Consensus size: 31
65377 CCCGAAGGAC
* * *
65387 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
65418 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
65449 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
65480 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
65511 C
1 C
65512 CCTCGACCCT
Statistics
Matches: 90, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
31 89 0.99
32 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:66473 original size:21 final size:21
Alignment explanation
Indices: 66448--66493 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
66438 TTCTGGTTCG
* * *
66448 CTTGAGGGGGTATCGGTTCCC
1 CTTGAAGGGGTACCGATTCCC
*
66469 CTTGAATGGGTACCGATTCCC
1 CTTGAAGGGGTACCGATTCCC
66490 CTTG
1 CTTG
66494 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.13, C:0.26, G:0.30, T:0.30
Consensus pattern (21 bp):
CTTGAAGGGGTACCGATTCCC
Found at i:67580 original size:24 final size:24
Alignment explanation
Indices: 67535--67581 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
67525 ATGTAATTGG
* *
67535 AGTTTGAATTTAAATTTCAATTTA
1 AGTTTGAATTTAAATATAAATTTA
*
67559 AGTTTGAATTTCAATATAAATTT
1 AGTTTGAATTTAAATATAAATTT
67582 CGGCTCCACT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.38, C:0.04, G:0.09, T:0.49
Consensus pattern (24 bp):
AGTTTGAATTTAAATATAAATTTA
Found at i:67926 original size:39 final size:39
Alignment explanation
Indices: 67883--67969 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
67873 TTCGATGTTC
*
67883 ATCAAAATCCAAAGCCCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCCCATATGGTACCAAGCAAAAGGAA
* *
67922 ATCAAAATCCAAATCTCATATGGTACCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCCCATATGGTACCAAGCAAAAGGAA
67961 ATCAAAATC
1 ATCAAAATC
67970 TACAACTTGA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.48, C:0.22, G:0.14, T:0.16
Consensus pattern (39 bp):
ATCAAAATCCAAAGCCCATATGGTACCAAGCAAAAGGAA
Found at i:68394 original size:60 final size:63
Alignment explanation
Indices: 68260--68401 Score: 200
Period size: 66 Copynumber: 2.3 Consensus size: 63
68250 TTTTAGAAAC
*
68260 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTACACATCAAATT
1 AACAAATCAACTTTTACAAATCAATT--A-AAGCAAAAAAATAAATCTTATTTACACATCAAATT
68325 A
63 A
* * *
68326 AACAAATCAACTTTTACAAATCAATT-AATC-AAAAAATAAATCTTATTTCCTCATC-AATTA
1 AACAAATCAACTTTTACAAATCAATTAAAGCAAAAAAATAAATCTTATTTACACATCAAATTA
68386 AACAAATCAACTTTTA
1 AACAAATCAACTTTTA
68402 ATGTAAAATT
Statistics
Matches: 72, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
60 21 0.29
61 22 0.31
62 3 0.04
66 26 0.36
ACGTcount: A:0.51, C:0.18, G:0.01, T:0.31
Consensus pattern (63 bp):
AACAAATCAACTTTTACAAATCAATTAAAGCAAAAAAATAAATCTTATTTACACATCAAATTA
Found at i:69784 original size:21 final size:21
Alignment explanation
Indices: 69760--69837 Score: 86
Period size: 21 Copynumber: 3.7 Consensus size: 21
69750 GCGGGCAGGA
*
69760 CCTCTTGAACGATGACAGGGG
1 CCTCTTGAACGATGAGAGGGG
*
69781 CCTCTTGAACGACGAGAGGGG
1 CCTCTTGAACGATGAGAGGGG
* * *
69802 CTTCTTCG-ATGATGAGAAGGG
1 CCTCTT-GAACGATGAGAGGGG
*
69823 CCTCTTGAATGATGA
1 CCTCTTGAACGATGA
69838 TAGGTGCATC
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
20 1 0.02
21 46 0.96
22 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.23
Consensus pattern (21 bp):
CCTCTTGAACGATGAGAGGGG
Found at i:71905 original size:19 final size:19
Alignment explanation
Indices: 71854--71907 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
71844 AGAAGTTTAT
*
71854 GAAACTTAAATTCGCAAAGC
1 GAAAC-TAAAATCGCAAAGC
* *
71874 GAAAATGAAAATCGCAACGC
1 GAAACT-AAAATCGCAAAGC
71894 GAAACTAAAATCGC
1 GAAACTAAAATCGC
71908 GTTGCAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 9 0.31
20 20 0.69
ACGTcount: A:0.48, C:0.20, G:0.17, T:0.15
Consensus pattern (19 bp):
GAAACTAAAATCGCAAAGC
Found at i:72428 original size:20 final size:20
Alignment explanation
Indices: 72403--72582 Score: 145
Period size: 20 Copynumber: 9.1 Consensus size: 20
72393 GTGTAAAAAC
*
72403 ATTTGACTTTTGCGTTACGA
1 ATTTGACTTTTGCGTTGCGA
* *
72423 ATTTGACTTATGTGTTGCG-
1 ATTTGACTTTTGCGTTGCGA
* *
72442 ATTT-ACAAATTCGCGTTGCGA
1 ATTTGAC--TTTTGCGTTGCGA
*
72463 ATTTGACTTTTGTGTTGCGA
1 ATTTGACTTTTGCGTTGCGA
* * *
72483 ATTTGACTATCGCGTAGCGA
1 ATTTGACTTTTGCGTTGCGA
* *
72503 ATTTGAC-TTTGTGTTGTGA
1 ATTTGACTTTTGCGTTGCGA
* *
72522 ATTTGACTATCGCGTTGCGA
1 ATTTGACTTTTGCGTTGCGA
* *
72542 ATTTGACTTATGTGTTGCG-
1 ATTTGACTTTTGCGTTGCGA
*
72561 ATTT-ACATATTCGCGTTGCGA
1 ATTTGAC-T-TTTGCGTTGCGA
72582 A
1 A
72583 ATTGGAAACT
Statistics
Matches: 122, Mismatches: 30, Indels: 15
0.73 0.18 0.09
Matches are distributed among these distances:
18 4 0.03
19 23 0.19
20 88 0.72
21 5 0.04
22 2 0.02
ACGTcount: A:0.21, C:0.14, G:0.23, T:0.42
Consensus pattern (20 bp):
ATTTGACTTTTGCGTTGCGA
Found at i:72469 original size:40 final size:40
Alignment explanation
Indices: 72403--72582 Score: 226
Period size: 40 Copynumber: 4.5 Consensus size: 40
72393 GTGTAAAAAC
* * *
72403 ATTTGACTTTTGCGTTACGAATTTGACTTATGTGTTGCG-
1 ATTTGACTATCGCGTTGCGAATTTGACTTATGTGTTGCGA
* *
72442 ATTT-ACAAATTCGCGTTGCGAATTTGACTTTTGTGTTGCGA
1 ATTTGAC-TA-TCGCGTTGCGAATTTGACTTATGTGTTGCGA
* *
72483 ATTTGACTATCGCGTAGCGAATTTGACTT-TGTGTTGTGA
1 ATTTGACTATCGCGTTGCGAATTTGACTTATGTGTTGCGA
72522 ATTTGACTATCGCGTTGCGAATTTGACTTATGTGTTGCG-
1 ATTTGACTATCGCGTTGCGAATTTGACTTATGTGTTGCGA
72561 ATTT-ACATATTCGCGTTGCGAA
1 ATTTGAC-TA-TCGCGTTGCGAA
72583 ATTGGAAACT
Statistics
Matches: 124, Mismatches: 10, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
38 4 0.03
39 47 0.38
40 66 0.53
41 5 0.04
42 2 0.02
ACGTcount: A:0.21, C:0.14, G:0.23, T:0.42
Consensus pattern (40 bp):
ATTTGACTATCGCGTTGCGAATTTGACTTATGTGTTGCGA
Found at i:72615 original size:119 final size:119
Alignment explanation
Indices: 72403--72627 Score: 294
Period size: 119 Copynumber: 1.9 Consensus size: 119
72393 GTGTAAAAAC
* * *
72403 ATTTGACTTTTGCGTTACGAATTTGACTTATGTGTTGCGATTTACAAATTCGCGTTGCGAATTTG
1 ATTTGACTATCGCGTTACGAATTTGACTTATGTGTTGCGATTTACAAATTCGCGTTGCGAATTGG
*** *
72468 ACTTTTGTGTTGCGAATTTGACTATCGCGTAGCGAATTTGACTTTGTGTTGTGA
66 ACAACTGTGTTGCGAATTGGACTATCGCGTAGCGAATTTGACTTTGTGTTGTGA
* *
72522 ATTTGACTATCGCGTTGCGAATTTGACTTATGTGTTGCGATTTACATATTCGCGTTGCGAAATTG
1 ATTTGACTATCGCGTTACGAATTTGACTTATGTGTTGCGATTTACAAATTCGCGTTGCG-AATTG
* * *
72587 GA-AACTG-GATTGTGAAATTGGAGT-TCGCGTTGCGAATTTGA
65 GACAACTGTG-TTGCG-AATTGGACTATCGCGTAGCGAATTTGA
72628 GATTACGTTG
Statistics
Matches: 91, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
118 1 0.01
119 77 0.85
120 13 0.14
ACGTcount: A:0.22, C:0.13, G:0.25, T:0.40
Consensus pattern (119 bp):
ATTTGACTATCGCGTTACGAATTTGACTTATGTGTTGCGATTTACAAATTCGCGTTGCGAATTGG
ACAACTGTGTTGCGAATTGGACTATCGCGTAGCGAATTTGACTTTGTGTTGTGA
Found at i:73499 original size:19 final size:19
Alignment explanation
Indices: 73477--73526 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
73467 TATATCAATC
73477 ATATTATAATTTATAAACA
1 ATATTATAATTTATAAACA
*
73496 ATATTATAATTTATAAATA
1 ATATTATAATTTATAAACA
*
73515 ATATTGTAATTT
1 ATATTATAATTT
73527 TATTTAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (19 bp):
ATATTATAATTTATAAACA
Found at i:73581 original size:26 final size:26
Alignment explanation
Indices: 73543--73593 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
73533 ATTTAATAAC
*
73543 TAATCATAGCACTAATTAATATATTT
1 TAATCATAACACTAATTAATATATTT
* *
73569 TAATTATAACACTAATTAGTATATT
1 TAATCATAACACTAATTAATATATT
73594 ATACAGAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.43, C:0.10, G:0.04, T:0.43
Consensus pattern (26 bp):
TAATCATAACACTAATTAATATATTT
Found at i:78123 original size:147 final size:147
Alignment explanation
Indices: 77856--78150 Score: 572
Period size: 147 Copynumber: 2.0 Consensus size: 147
77846 ATAGCGTGTG
77856 GTCAGCCTGGCACTGAAGATAGCCAAATTGTAGAATGCCTTTGGTAAACCTCTCTAACCAAGCAC
1 GTCAGCCTGGCACTGAAGATAGCCAAATTGTAGAATGCCTTTGGTAAACCTCTCTAACCAAGCAC
*
77921 GCGACGACTGCTTAAGGCCTTATAAAGAGAAGCTTGCAAACCTGCCCTGTATTCGAAGTCAAAGA
66 GCGACGACTGCTTAAGGCCGTATAAAGAGAAGCTTGCAAACCTGCCCTGTATTCGAAGTCAAAGA
77986 TAAGCCAGGTGGTTTTT
131 TAAGCCAGGTGGTTTTT
78003 GTCAGCCTGGCACTGAAGATAGCCAAATTGTAGAATGCCTTTGGTAAACCTCTCTAACCAAGCAC
1 GTCAGCCTGGCACTGAAGATAGCCAAATTGTAGAATGCCTTTGGTAAACCTCTCTAACCAAGCAC
78068 GCGACGACTGCTTAAGGCCGTATAAAGAGAAGCTTGCAAACCTGCCCTGTATTCGAAGTCAAAGA
66 GCGACGACTGCTTAAGGCCGTATAAAGAGAAGCTTGCAAACCTGCCCTGTATTCGAAGTCAAAGA
*
78133 TAAGGCAGGTGGTTTTT
131 TAAGCCAGGTGGTTTTT
78150 G
1 G
78151 CAAAAATAAT
Statistics
Matches: 146, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
147 146 1.00
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (147 bp):
GTCAGCCTGGCACTGAAGATAGCCAAATTGTAGAATGCCTTTGGTAAACCTCTCTAACCAAGCAC
GCGACGACTGCTTAAGGCCGTATAAAGAGAAGCTTGCAAACCTGCCCTGTATTCGAAGTCAAAGA
TAAGCCAGGTGGTTTTT
Found at i:78905 original size:24 final size:24
Alignment explanation
Indices: 78847--78905 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
78837 GTTAATGGAG
78847 CAATTTTGGGTACAGAAGTAGGCT
1 CAATTTTGGGTACAGAAGTAGGCT
* ** *
78871 GAATTCCGGGTATAGAAGTAGGCT
1 CAATTTTGGGTACAGAAGTAGGCT
78895 CAATTTTGGGT
1 CAATTTTGGGT
78906 TGTGGTAAAG
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.27, C:0.12, G:0.31, T:0.31
Consensus pattern (24 bp):
CAATTTTGGGTACAGAAGTAGGCT
Found at i:79531 original size:38 final size:37
Alignment explanation
Indices: 79471--79548 Score: 138
Period size: 38 Copynumber: 2.1 Consensus size: 37
79461 TAAAATGTTG
*
79471 TAAAAATACCTCAGTTTTAGATTTGGCTTTCATTAAA
1 TAAAAATACCTCAGTTTCAGATTTGGCTTTCATTAAA
79508 TAAAAATACCCTCAGTTTCAGATTTGGCTTTCATTAAA
1 TAAAAATA-CCTCAGTTTCAGATTTGGCTTTCATTAAA
79546 TAA
1 TAA
79549 GTCTAAGTTG
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
37 8 0.21
38 31 0.79
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.38
Consensus pattern (37 bp):
TAAAAATACCTCAGTTTCAGATTTGGCTTTCATTAAA
Found at i:82398 original size:34 final size:33
Alignment explanation
Indices: 82356--82422 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 33
82346 CTTTAAGTTA
* *
82356 ATTACAAGATTTCCTTGATTAAGAGAATGTATT
1 ATTACAAGAATTCCTTGATTAAGAAAATGTATT
*
82389 ATTACCAAGAATTCCTTGATTGAGAAAATGTATT
1 ATTA-CAAGAATTCCTTGATTAAGAAAATGTATT
82423 GCATATTCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 4 0.13
34 26 0.87
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.37
Consensus pattern (33 bp):
ATTACAAGAATTCCTTGATTAAGAAAATGTATT
Found at i:86244 original size:3 final size:3
Alignment explanation
Indices: 86236--86338 Score: 163
Period size: 3 Copynumber: 34.7 Consensus size: 3
86226 TTTTTATCCA
* * *
86236 TAT TAT TAT TAT TAT TAT TAT TAT TAA TAT TAT TAT TAT CAT TAT TAA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
86284 TAT TAT TAT TAT TAT TTT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
86331 TAT TAT TA
1 TAT TAT TA
86339 AATATATTAA
Statistics
Matches: 91, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
2 2 0.02
3 89 0.98
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:86877 original size:29 final size:26
Alignment explanation
Indices: 86815--86867 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
86805 GACGAGACAG
86815 AGACAGAGGACAGTAAAAAAAAAACC
1 AGACAGAGGACAGTAAAAAAAAAACC
86841 AGACAGAGGACAGTAAAAAAAAAACC
1 AGACAGAGGACAGTAAAAAAAAAACC
86867 A
1 A
86868 ATAGCCAGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.62, C:0.15, G:0.19, T:0.04
Consensus pattern (26 bp):
AGACAGAGGACAGTAAAAAAAAAACC
Found at i:93508 original size:14 final size:14
Alignment explanation
Indices: 93489--93522 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
93479 TCCAGCAAAG
*
93489 AAAGAAGAAGAAAA
1 AAAGAAGAAAAAAA
93503 AAAGAAGAAAAAAA
1 AAAGAAGAAAAAAA
93517 AAAGAA
1 AAAGAA
93523 AAAGGAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (14 bp):
AAAGAAGAAAAAAA
Found at i:93509 original size:11 final size:11
Alignment explanation
Indices: 93493--93525 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
93483 GCAAAGAAAG
93493 AAGAAGAAAAA
1 AAGAAGAAAAA
93504 AAGAAGAAAAA
1 AAGAAGAAAAA
*
93515 AAAAAGAAAAA
1 AAGAAGAAAAA
93526 GGAAAATTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (11 bp):
AAGAAGAAAAA
Found at i:93531 original size:14 final size:14
Alignment explanation
Indices: 93489--93531 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
93479 TCCAGCAAAG
*
93489 AAAGAAGAAGAAAA
1 AAAGAAAAAGAAAA
93503 AAAGAAGAAA-AAAA
1 AAAGAA-AAAGAAAA
93517 AAAGAAAAAGGAAAA
1 AAAGAAAAA-GAAAA
93532 TTGAATCAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 3 0.12
14 16 0.64
15 6 0.24
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (14 bp):
AAAGAAAAAGAAAA
Found at i:96148 original size:83 final size:84
Alignment explanation
Indices: 95761--96150 Score: 617
Period size: 83 Copynumber: 4.7 Consensus size: 84
95751 AATGGAACAA
* *
95761 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAG-CAGAAC
1 ATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGACAGAAC
**
95825 CAATCATTGAATTGGGAAG
66 CAATCATTGAATTTAGAAG
*
95844 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACAGAAC
1 ATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGACAGAAC
*
95908 CAATCATTAAATTTAGAAG
66 CAATCATTGAATTTAGAAG
* * *
95927 ATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACAGAAT
1 ATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGACAGAAC
* *
95991 CAAACATTGAATTTGGAAG
66 CAATCATTGAATTTAGAAG
* *
96010 ATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-CAAAAC
1 ATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGACAGAAC
96074 CAATCATTGAATTTAGAAG
66 CAATCATTGAATTTAGAAG
* *
96093 ATGAATTTGCTCATAGCATCTTCTGGAAGTATTCTTTGAGTTATTTGATCTGGTTTGG
1 ATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG
96151 TAGGAACTAC
Statistics
Matches: 286, Mismatches: 19, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
82 3 0.01
83 279 0.98
84 4 0.01
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.37
Consensus pattern (84 bp):
ATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGACAGAAC
CAATCATTGAATTTAGAAG
Found at i:97415 original size:74 final size:74
Alignment explanation
Indices: 97263--97424 Score: 193
Period size: 74 Copynumber: 2.2 Consensus size: 74
97253 AAGCAAATAT
* * *
97263 TGGGGCATGCTGAAAACCCTTTTCAAACAGAATCAGAAATGTTGAAATATTCTGAATATTTATCA
1 TGGGGCATGCTGAAAACCCATTTCAAACAGAATCAGAAATGTTGAAACATTCTGAACATTTATCA
*
97328 GCAAAATGC
66 ACAAAATGC
* * ** *
97337 TGGGGCATGCTGAAAACCCATTTCAATCAGAATCAGAACTGTTGATGCATTTTGAACACTTGTAT
1 TGGGGCATGCTGAAAACCCATTTCAAACAGAATCAGAAATGTTGAAACATTCTGAACA-TT-TAT
* *
97402 TAAC-CAATG-
64 CAACAAAATGC
97411 TGGGGCATGCTGAA
1 TGGGGCATGCTGAA
97425 GGCCTATATC
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
74 64 0.85
75 6 0.08
76 5 0.07
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.28
Consensus pattern (74 bp):
TGGGGCATGCTGAAAACCCATTTCAAACAGAATCAGAAATGTTGAAACATTCTGAACATTTATCA
ACAAAATGC
Found at i:98739 original size:22 final size:22
Alignment explanation
Indices: 98713--98767 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
98703 ATCTACACTC
98713 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
98735 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
98757 TTCAAAGATGA
1 TTCAAAGATGA
98768 AAACTTTATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.38
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:99608 original size:113 final size:113
Alignment explanation
Indices: 99236--100251 Score: 1396
Period size: 112 Copynumber: 8.9 Consensus size: 113
99226 CATTTGAAGA
* * ** * * * ** *
99236 AGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACCCGGTGGATCAGCAGTGT-CAGTTAGAG
1 AGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTTGATGGATCATCA-TTTCCAGAGAAAG
*
99300 TTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAATTCATAATG
65 TTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
* * * * * * ** *
99348 AGAAGAATTTGTTCAACCTTTTCCCTGAATTCATTACTTGATGAATTATTTTTTCCAGAGGAAGT
1 AGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTTGATGGATCATCATTTCCAGAGAAAGT
*
99413 TCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAGTTCATAATG
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
* * * *
99460 AGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
1 AGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTTGATGGATCATCATTTCCAGAGAAAGT
*
99525 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
* ** * *
99573 AGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCA-TTCGATGGATCAGCATTTCCAGAGAAAG
1 AGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTT-GATGGATCATCATTTCCAGAGAAAG
99637 TTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
65 TTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
* * * * * *
99686 AGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCATTTGATGGATCAGCTTTTCCAGAAAAAGT
1 AGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTTGATGGATCATCATTTCCAGAGAAAGT
*
99751 TCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAGTTCATAATG
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
* * * *
99798 AGAAGAACTTGTTTAACCTTTTGCTCGAATTCATCACTTGATGGATTAACATTTCCAGAGAAAGT
1 AGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTTGATGGATCATCATTTCCAGAGAAAGT
99863 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
*
99911 AGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCAAATTGATGGATCATCATTTCCAGAGGAAG
1 AGAAGAACTTGTTCAACCTTTTGCTTGAATTCATC-ACTTGATGGATCATCATTTCCAGA-GAA-
99976 AGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
63 AGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATG
*
100030 AGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCAAATTGATGGATCATCATTTCCAGAGAAAG
1 AGAAGAACTTGTTCAACCTTTTGCTTGAATTCATC-ACTTGATGGATCATCATTTCCAGAG-AA-
100095 AGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
63 AGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATG
* * * **
100149 AGAAGAACTTGTTCAATCTTTTGCTTGAATTCATCATTTGATGGAACATCATCCCCAGCAGAAAG
1 AGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTTGATGGATCATCATTTCCAG-AGAAAG
* *
100214 TTCATAATGAGAAGAACTCATCTGGAGAA-AAAGAAGAA
65 TTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
100252 TTTATTCAAT
Statistics
Matches: 818, Mismatches: 73, Indels: 25
0.89 0.08 0.03
Matches are distributed among these distances:
111 2 0.00
112 271 0.33
113 263 0.32
114 34 0.04
115 4 0.00
116 18 0.02
117 18 0.02
118 23 0.03
119 185 0.23
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (113 bp):
AGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTTGATGGATCATCATTTCCAGAGAAAGT
TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
Found at i:99641 original size:225 final size:226
Alignment explanation
Indices: 99236--100251 Score: 1396
Period size: 225 Copynumber: 4.5 Consensus size: 226
99226 CATTTGAAGA
* * ** * * * * ** *
99236 AGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACCCGGTGGATCAGCAGTGTCAGTTAGAGT
1 AGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTTGATGGATCATCATTGCCAGAGAAAGT
*
99301 TCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAAC
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAAC
* * * * ** *
99365 CTTTT-CCCTGAATTCATTACTTGATGAATTATTTTTTCCAGAGGAAGTTCATAATGAGAAGAAC
131 CTTTTGCTC-GAATTCATCACTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAAC
*
99429 TTATCTGAAG-AGGAAGAAGAAGTTCATAATG
195 TCATCTGAAGAAGGAAGAAGAAGTTCATAATG
* * *
99460 AGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCACTTGATGGATTATCATTGCCAGAGAAGGT
1 AGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTTGATGGATCATCATTGCCAGAGAAAGT
*
99525 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAAC
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAAC
* * *
99590 CTTTTGCTCAAATCCATCA-TTCGATGGATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAAC
131 CTTTTGCTCGAATTCATCACTT-GATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAAC
99654 TCATCTGAAGAAGGAAGAAGAAGTTCATAATG
195 TCATCTGAAGAAGGAAGAAGAAGTTCATAATG
* * * * * * *
99686 AGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCATTTGATGGATCAGCTTTTCCAGAAAAAGT
1 AGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTTGATGGATCATCATTGCCAGAGAAAGT
* * *
99751 TCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAAC
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAAC
* *
99815 CTTTTGCTCGAATTCATCACTTGATGGATTAACATTTCCAGAGAAAGTTCATAATGAGAAGAACT
131 CTTTTGCTCGAATTCATCACTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACT
99880 CATCTGAAGAAGGAAGAAGAAGTTCATAATG
196 CATCTGAAGAAGGAAGAAGAAGTTCATAATG
* *
99911 AGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCAAATTGATGGATCATCATTTCCAGAGGAAG
1 AGAAGAACTTGTTCAACCTTTTGCTTGAATTCATC-ACTTGATGGATCATCATTGCCAGA-GAA-
*
99976 AGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTG
63 AGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTG
* *
100041 TTCAACCTTTTGCTTGAATTCATCAAATTGATGGATCATCATTTCCAGAGAAAGAGTTCATAATG
125 TTCAACCTTTTGCTCGAATTCATC-ACTTGATGGATCATCATTTCCAGAG-AA-AGTTCATAATG
100106 AGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
187 AGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATG
* * * **
100149 AGAAGAACTTGTTCAATCTTTTGCTTGAATTCATCATTTGATGGAACATCATCCCCAGCAGAAAG
1 AGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTTGATGGATCATCATTGCCAG-AGAAAG
* *
100214 TTCATAATGAGAAGAACTCATCTGGAGAA-AAAGAAGAA
65 TTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
100252 TTTATTCAAT
Statistics
Matches: 711, Mismatches: 62, Indels: 30
0.89 0.08 0.04
Matches are distributed among these distances:
224 79 0.11
225 252 0.35
226 126 0.18
227 2 0.00
228 18 0.03
230 1 0.00
231 9 0.01
232 62 0.09
233 33 0.05
234 3 0.00
235 18 0.03
236 18 0.03
237 23 0.03
238 67 0.09
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (226 bp):
AGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTTGATGGATCATCATTGCCAGAGAAAGT
TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAAC
CTTTTGCTCGAATTCATCACTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACT
CATCTGAAGAAGGAAGAAGAAGTTCATAATG
Found at i:99858 original size:338 final size:338
Alignment explanation
Indices: 99236--100251 Score: 1473
Period size: 338 Copynumber: 3.0 Consensus size: 338
99226 CATTTGAAGA
* ** * * ** *
99236 AGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACCCGGTGGATCAGCAGTGT-CAGTTAGAG
1 AGAAGAACTTGTTCAACCTTTTGCTTAAATTCATCATTCGATGGATCAGCA-TTTCCAGAGAAAG
* *
99300 TTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAA
65 TTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA
* * * * * * * **
99364 CCTTTTCCCTGAATTCATTACTTGATGAATTATTTTTTCCAGAGGAAGTTCATAATGAGAAGAAC
130 CCTTTTGCTTGAATTCATCAATTGATGGATCATCTTTTCCAGAAAAAGTTCATAATGAGAAGAAC
99429 TTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCAT
195 TTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCAT
* *
99494 CACTTGATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
260 CACTTGATGGATTATCATTCCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
99559 AGAAATTCATAATG
325 AGAAATTCATAATG
* * *
99573 AGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTCGATGGATCAGCATTTCCAGAGAAAGT
1 AGAAGAACTTGTTCAACCTTTTGCTTAAATTCATCATTCGATGGATCAGCATTTCCAGAGAAAGT
99638 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC
66 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC
* * * *
99703 TTTTTGCTTAAATTCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACT
131 CTTTTGCTTGAATTCATCAATTGATGGATCATCTTTTCCAGAAAAAGTTCATAATGAGAAGAACT
*
99768 TATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTCGAATTCATC
196 TATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATC
* *
99833 ACTTGATGGATTAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
261 ACTTGATGGATTATCATTCCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
*
99898 GAAGTTCATAATG
326 GAAATTCATAATG
* *
99911 AGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCAAATT-GATGGATCATCATTTCCAGAGGAA
1 AGAAGAACTTGTTCAACCTTTTGCTTAAATTCATC--ATTCGATGGATCAGCATTTCCAGA-GAA
99975 GAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTT
63 -AGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTT
*
100040 GTTCAACCTTTTGCTTGAATTCATCAAATTGATGGATCATCATTTCCAGAGAAAGAGTTCATAAT
124 GTTCAACCTTTTGCTTGAATTCATC-AATTGATGGATCATCTTTTCCAGA-AAA-AGTTCATAAT
* *
100105 GAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTT
186 GAGAAGAACT--T-ATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTT
* ** *
100170 TGCTTGAATTCATCATTTGATGGAACATCATCCCCAGCAGAAAGTTCATAATGAGAAGAACTCAT
247 TGCTTGAATTCATCACTTGATGGATTATCATTCCCAG-AGAAAGTTCATAATGAGAAGAACTCAT
* *
100235 CTGGAGAA-AAAGAAGAA
311 CTGAAGAAGGAAGAAGAA
100252 TTTATTCAAT
Statistics
Matches: 611, Mismatches: 51, Indels: 20
0.90 0.07 0.03
Matches are distributed among these distances:
336 2 0.00
337 77 0.13
338 258 0.42
339 19 0.03
340 6 0.01
341 18 0.03
343 1 0.00
344 65 0.11
345 21 0.03
346 3 0.00
347 20 0.03
349 1 0.00
350 8 0.01
351 78 0.13
352 34 0.06
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (338 bp):
AGAAGAACTTGTTCAACCTTTTGCTTAAATTCATCATTCGATGGATCAGCATTTCCAGAGAAAGT
TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC
CTTTTGCTTGAATTCATCAATTGATGGATCATCTTTTCCAGAAAAAGTTCATAATGAGAAGAACT
TATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATC
ACTTGATGGATTATCATTCCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
GAAATTCATAATG
Found at i:100400 original size:3 final size:3
Alignment explanation
Indices: 100387--100484 Score: 132
Period size: 3 Copynumber: 33.7 Consensus size: 3
100377 TTTTTATCCA
* *
100387 TAT TA- TAT TAT TAT TAT TAT TA- TAT TAT TAT TAT CAT TAT TAA TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
100433 TAT TAT TAT TAT TAT TTT TAT T-T TAT TAT TAT TAT TAT TA- TATT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
100477 TAT TAT TA
1 TAT TAT TA
100485 AATATATTAA
Statistics
Matches: 84, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
2 8 0.10
3 74 0.88
4 2 0.02
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:101025 original size:29 final size:26
Alignment explanation
Indices: 100963--101015 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
100953 ACAGAGACAG
100963 AGACAGAGGACAGTAAAAAAAAAACC
1 AGACAGAGGACAGTAAAAAAAAAACC
100989 AGACAGAGGACAGTAAAAAAAAAACC
1 AGACAGAGGACAGTAAAAAAAAAACC
101015 A
1 A
101016 ATAGCCAGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.62, C:0.15, G:0.19, T:0.04
Consensus pattern (26 bp):
AGACAGAGGACAGTAAAAAAAAAACC
Found at i:102758 original size:22 final size:22
Alignment explanation
Indices: 102733--102775 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
102723 AAAATTTAAG
102733 CTCAACATTGAACTTTTCAAGA
1 CTCAACATTGAACTTTTCAAGA
***
102755 CTCAGTTTTGAACTTTTCAAG
1 CTCAACATTGAACTTTTCAAG
102776 TCGAACTTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.37
Consensus pattern (22 bp):
CTCAACATTGAACTTTTCAAGA
Found at i:109087 original size:25 final size:25
Alignment explanation
Indices: 109053--109100 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
109043 ATGTGGCCTG
*
109053 TTGAGAGACAAGAACTAGAACTATA
1 TTGAAAGACAAGAACTAGAACTATA
*
109078 TTGAAAGACATGAACTAGAACTA
1 TTGAAAGACAAGAACTAGAACTA
109101 GAACCAGAAC
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:0.12, G:0.19, T:0.21
Consensus pattern (25 bp):
TTGAAAGACAAGAACTAGAACTATA
Found at i:114460 original size:21 final size:21
Alignment explanation
Indices: 114434--114478 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
114424 GGTGCTAACC
114434 TCTTTGCCGATTTTCTTTCTA
1 TCTTTGCCGATTTTCTTTCTA
114455 TCTTTGCCGATTTTCTTTCTA
1 TCTTTGCCGATTTTCTTTCTA
114476 TCT
1 TCT
114479 CTTTTCAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.09, C:0.24, G:0.09, T:0.58
Consensus pattern (21 bp):
TCTTTGCCGATTTTCTTTCTA
Found at i:125212 original size:24 final size:24
Alignment explanation
Indices: 125168--125213 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
125158 ATCTATTACA
* *
125168 GATTCTTAGGCTAATTGTTAGGTT
1 GATTATTAGGCTAATTATTAGGTT
125192 GATTATTAGGC-AGATTATTAGG
1 GATTATTAGGCTA-ATTATTAGG
125214 CTAATCATCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 1 0.05
24 18 0.95
ACGTcount: A:0.26, C:0.07, G:0.26, T:0.41
Consensus pattern (24 bp):
GATTATTAGGCTAATTATTAGGTT
Found at i:134827 original size:24 final size:24
Alignment explanation
Indices: 134795--134843 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
134785 CACCACAGTT
* * *
134795 CGTATAAATTGTACTGAAGTGCCA
1 CGTAAAAATTGCACCGAAGTGCCA
134819 CGTAAAAATTGCACCGAAGTGCCA
1 CGTAAAAATTGCACCGAAGTGCCA
134843 C
1 C
134844 ATAGAAAAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.22
Consensus pattern (24 bp):
CGTAAAAATTGCACCGAAGTGCCA
Found at i:135049 original size:45 final size:44
Alignment explanation
Indices: 134990--135081 Score: 121
Period size: 45 Copynumber: 2.1 Consensus size: 44
134980 ACCGTTTACA
*
134990 CATTTCACATAGCTTGTATCACATAGACATATAATCACATAAAT
1 CATTTCACATAGCTTATATCACATAGACATATAATCACATAAAT
* *** *
135034 CATTGTCATATAGCTTATATCACATTTTCATGTAATCACATAAAT
1 CATT-TCACATAGCTTATATCACATAGACATATAATCACATAAAT
135079 CAT
1 CAT
135082 GTAACACGTA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
44 4 0.10
45 37 0.90
ACGTcount: A:0.38, C:0.20, G:0.07, T:0.36
Consensus pattern (44 bp):
CATTTCACATAGCTTATATCACATAGACATATAATCACATAAAT
Found at i:142794 original size:43 final size:46
Alignment explanation
Indices: 142694--142798 Score: 128
Period size: 49 Copynumber: 2.3 Consensus size: 46
142684 AGGATCATAT
* *
142694 TTATTATTTTATTAGGAATTAAGGTTGGGTTAAAACAATATTTTAGTTA
1 TTATTATTTTATTAGGAATTAA-G--GAGTTAAAACAATAGTTTAGTTA
142743 TTATTATTTTATTAGGAATT-A-GAGTTAAAAC-AT-GTTTAGTTTA
1 TTATTATTTTATTAGGAATTAAGGAGTTAAAACAATAGTTTAG-TTA
142786 TTATTATTTTATT
1 TTATTATTTTATT
142799 CTCTAGTTAT
Statistics
Matches: 53, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
42 5 0.09
43 18 0.34
44 9 0.17
48 1 0.02
49 20 0.38
ACGTcount: A:0.33, C:0.02, G:0.13, T:0.51
Consensus pattern (46 bp):
TTATTATTTTATTAGGAATTAAGGAGTTAAAACAATAGTTTAGTTA
Found at i:150915 original size:35 final size:34
Alignment explanation
Indices: 150830--150916 Score: 90
Period size: 35 Copynumber: 2.5 Consensus size: 34
150820 AATATAATTT
*
150830 TAAATACAACAAACTTACAATAAGTATTAAATGG
1 TAAATACAACAAAATTACAATAAGTATTAAATGG
*
150864 TAAATGATAA-ACAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACA-AAATTACAATAA--G-TATTAAATGG
150902 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
150917 ACCAAAATAC
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
34 6 0.13
35 22 0.49
36 2 0.04
37 4 0.09
38 11 0.24
ACGTcount: A:0.55, C:0.09, G:0.08, T:0.28
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGTATTAAATGG
Found at i:150949 original size:34 final size:33
Alignment explanation
Indices: 150907--150994 Score: 106
Period size: 33 Copynumber: 2.6 Consensus size: 33
150897 AATGGTAATA
*
150907 AACAAAATTAACCAAAATACATTAACAA-AAAGTCC
1 AACAAAATTAA-CAAAATAAATTAA-AATAAA-TCC
*
150942 AACAAATTTAACAAAATAAATTAAAATAAATCC
1 AACAAAATTAACAAAATAAATTAAAATAAATCC
**
150975 AACAAAATTAATGAAATAAA
1 AACAAAATTAACAAAATAAA
150995 GTAAGTATTA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
33 22 0.47
34 15 0.32
35 10 0.21
ACGTcount: A:0.64, C:0.14, G:0.02, T:0.20
Consensus pattern (33 bp):
AACAAAATTAACAAAATAAATTAAAATAAATCC
Found at i:153293 original size:17 final size:16
Alignment explanation
Indices: 153260--153299 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
153250 ATATCTGCAA
* *
153260 AAAAAATTAATTAAAT
1 AAAATATTAAATAAAT
153276 AAAATATTAAATATAAT
1 AAAATATTAAATA-AAT
153293 AAAATAT
1 AAAATAT
153300 ACCTTAAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AAAATATTAAATAAAT
Found at i:163693 original size:98 final size:98
Alignment explanation
Indices: 163524--163718 Score: 363
Period size: 98 Copynumber: 2.0 Consensus size: 98
163514 AATCATAACT
*
163524 GAAACTGAGATATGATGCACTTCAGTGCAATCATAACCTGAATGAGCACCAACGGTGCTGAACAT
1 GAAACTGAGATATGATGCACTTCAGTGCAATCATAACCTGAATGAGCACCAACGATGCTGAACAT
*
163589 TGATACACGAATGTATCAAAGCTGAACTGATAC
66 TGATACACGAATGTATCAAAGATGAACTGATAC
163622 GAAACTGAGATATGATGCACTTCAGTGCAATCATAACCTGAATGAGCACCAACGATGCTGAACAT
1 GAAACTGAGATATGATGCACTTCAGTGCAATCATAACCTGAATGAGCACCAACGATGCTGAACAT
*
163687 TGATACACGAATGTGTCAAAGATGAACTGATA
66 TGATACACGAATGTATCAAAGATGAACTGATA
163719 AGTACTCACT
Statistics
Matches: 94, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 94 1.00
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (98 bp):
GAAACTGAGATATGATGCACTTCAGTGCAATCATAACCTGAATGAGCACCAACGATGCTGAACAT
TGATACACGAATGTATCAAAGATGAACTGATAC
Found at i:163857 original size:35 final size:35
Alignment explanation
Indices: 163818--163916 Score: 92
Period size: 35 Copynumber: 2.8 Consensus size: 35
163808 AATATGTATT
** *
163818 TGATAAATGTTAAAT-ATATGATATTTGTAATTATC
1 TGATAAATG-TAAATCATATGATAACTGTAAATATC
* *
163853 TGATAACTGTAAATCATCTGATAACTGTAAATATC
1 TGATAAATGTAAATCATATGATAACTGTAAATATC
** * * *
163888 TGATAGTTGAAAATCATCTGATAATTGTA
1 TGATAAATGTAAATCATATGATAACTGTA
163917 GACATTTAGA
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
34 5 0.09
35 49 0.91
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.39
Consensus pattern (35 bp):
TGATAAATGTAAATCATATGATAACTGTAAATATC
Found at i:163873 original size:18 final size:18
Alignment explanation
Indices: 163850--163916 Score: 91
Period size: 18 Copynumber: 3.8 Consensus size: 18
163840 ATTTGTAATT
163850 ATCTGATAACTGTAAATC
1 ATCTGATAACTGTAAATC
163868 ATCTGATAACTGTAAAT-
1 ATCTGATAACTGTAAATC
** *
163885 ATCTGATAGTTGAAAATC
1 ATCTGATAACTGTAAATC
*
163903 ATCTGATAATTGTA
1 ATCTGATAACTGTA
163917 GACATTTAGA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
17 14 0.33
18 29 0.67
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (18 bp):
ATCTGATAACTGTAAATC
Found at i:163901 original size:17 final size:17
Alignment explanation
Indices: 163818--163916 Score: 90
Period size: 18 Copynumber: 5.6 Consensus size: 17
163808 AATATGTATT
* *
163818 TGATAAATGTTAAATATA
1 TGATAACTG-TAAATATC
** *
163836 TGATATTTGTAATTATC
1 TGATAACTGTAAATATC
163853 TGATAACTGTAAATCATC
1 TGATAACTGTAAAT-ATC
163871 TGATAACTGTAAATATC
1 TGATAACTGTAAATATC
** *
163888 TGATAGTTGAAAATCATC
1 TGATAACTGTAAAT-ATC
*
163906 TGATAATTGTA
1 TGATAACTGTA
163917 GACATTTAGA
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
17 31 0.46
18 36 0.54
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.39
Consensus pattern (17 bp):
TGATAACTGTAAATATC
Found at i:164126 original size:3 final size:3
Alignment explanation
Indices: 164118--164166 Score: 82
Period size: 3 Copynumber: 16.7 Consensus size: 3
164108 ATTTAACACT
*
164118 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA TTA TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
164165 TT
1 TT
164167 TTAAATCAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
2 2 0.05
3 41 0.95
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:168037 original size:76 final size:75
Alignment explanation
Indices: 167946--168110 Score: 242
Period size: 76 Copynumber: 2.2 Consensus size: 75
167936 TTAAACTCAA
*
167946 ATTTAGGATAATATTTTAAACATTATAT-TTTATCTTTGTATTTTAGTTTAAATAGGTTTTTAGT
1 ATTTAGGATATTATTTT-AACATTATATCTTTATCTTTGTATTTTAGTTTAAATAGG-TTTTAGT
168010 ATTTTAATTAAG
64 ATTTTAATTAAG
* * * *
168022 TTTTAGGATATTATTTTTATATTTTATCTTTATCTTTGTATTTTAGTTTAAATAGGTTTTAGTAT
1 ATTTAGGATATTATTTTAACATTATATCTTTATCTTTGTATTTTAGTTTAAATAGGTTTTAGTAT
*
168087 TTTAATTAGG
66 TTTAATTAAG
*
168097 ATTTAGAATATTAT
1 ATTTAGGATATTAT
168111 ATTATTATTT
Statistics
Matches: 80, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
75 37 0.46
76 43 0.54
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.56
Consensus pattern (75 bp):
ATTTAGGATATTATTTTAACATTATATCTTTATCTTTGTATTTTAGTTTAAATAGGTTTTAGTAT
TTTAATTAAG
Found at i:168120 original size:75 final size:76
Alignment explanation
Indices: 167974--168121 Score: 237
Period size: 75 Copynumber: 2.0 Consensus size: 76
167964 AACATTATAT
* * *
167974 TTTATCTTTGTATTTTAGTTTAAATAGGTTTTTAGTATTTTAATTAAGTTTTAGGATATTATTTT
1 TTTATCTTTGTATTTTAGTTTAAATAGGTTTTTAGTATTTTAATTAAGATTTAGAATATTATTTA
168039 TATATTTTATC
66 TATATTTTATC
*
168050 TTTATCTTTGTATTTTAGTTTAAATAGG-TTTTAGTATTTTAATTAGGATTTAGAATATTATATT
1 TTTATCTTTGTATTTTAGTTTAAATAGGTTTTTAGTATTTTAATTAAGATTTAGAATATTAT-TT
168114 AT-TATTTT
65 ATATATTTT
168122 TAGGTATTTT
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
75 36 0.54
76 31 0.46
ACGTcount: A:0.28, C:0.02, G:0.11, T:0.59
Consensus pattern (76 bp):
TTTATCTTTGTATTTTAGTTTAAATAGGTTTTTAGTATTTTAATTAAGATTTAGAATATTATTTA
TATATTTTATC
Found at i:168176 original size:21 final size:21
Alignment explanation
Indices: 168144--168198 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
168134 TTTAAATAGT
168144 TTTAAG-TGTTTTAATTAGGA
1 TTTAAGATGTTTTAATTAGGA
168164 TTTAAGATGTTTTAATTAGGA
1 TTTAAGATGTTTTAATTAGGA
168185 TTTAAGATGTTTTA
1 TTTAAGATGTTTTA
168199 GCTTGTTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 6 0.18
21 28 0.82
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (21 bp):
TTTAAGATGTTTTAATTAGGA
Found at i:168198 original size:66 final size:66
Alignment explanation
Indices: 168060--168199 Score: 160
Period size: 66 Copynumber: 2.1 Consensus size: 66
168050 TTTATCTTTG
** *
168060 TATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAGGATTTAGAATATTATATTATTATTTTTAG
1 TATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAGGATTTAGAATATTATATTAGGATTTTAAG
*
168125 G
66 A
* * *
168126 TATTTTAGTTTAAATA-GTTTTAAGTGTTTTAATTAGGATTTA-AGATGTTTTAATTAGGA-TTT
1 TATTTTAGTTTAAATAGGTTTT-AGTATTTTAATTAGGATTTAGA-ATATTAT-ATTAGGATTTT
168188 AAGA
63 AAGA
*
168192 TGTTTTAG
1 TATTTTAG
168200 CTTGTTTTTA
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
65 6 0.10
66 52 0.83
67 5 0.08
ACGTcount: A:0.31, C:0.00, G:0.16, T:0.53
Consensus pattern (66 bp):
TATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAGGATTTAGAATATTATATTAGGATTTTAAG
A
Found at i:168803 original size:18 final size:18
Alignment explanation
Indices: 168780--168822 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
168770 CTTTAATCTG
168780 TTTATTTAATTATTATTA
1 TTTATTTAATTATTATTA
168798 TTTATTTAATTATTATTA
1 TTTATTTAATTATTATTA
168816 TTTATTT
1 TTTATTT
168823 TAACCACAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTATTTAATTATTATTA
Found at i:168893 original size:16 final size:16
Alignment explanation
Indices: 168852--168894 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 16
168842 AATTCCCCTT
168852 TTATATT-TATTATTA
1 TTATATTATATTATTA
168867 TTA-A-TAT-TTATTA
1 TTATATTATATTATTA
168880 TTATATTATATTATT
1 TTATATTATATTATT
168895 TCTTTTCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 10 0.42
14 3 0.12
15 6 0.25
16 5 0.21
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTATATTATATTATTA
Found at i:168907 original size:27 final size:27
Alignment explanation
Indices: 168877--168928 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
168867 TTAATATTTA
* *
168877 TTATTATATTATATTATTTCTTTTCTT
1 TTATTATATTATAATATATCTTTTCTT
*
168904 TTATTATATTTTAATATATCTTTTC
1 TTATTATATTATAATATATCTTTTC
168929 AACTTCATCT
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:0.25, C:0.08, G:0.00, T:0.67
Consensus pattern (27 bp):
TTATTATATTATAATATATCTTTTCTT
Found at i:174329 original size:1 final size:1
Alignment explanation
Indices: 174319--174352 Score: 50
Period size: 1 Copynumber: 34.0 Consensus size: 1
174309 CAATATTTCG
* *
174319 TTTTTATTTTTTTTTATTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
174353 AGCGAACTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.06, C:0.00, G:0.00, T:0.94
Consensus pattern (1 bp):
T
Found at i:174334 original size:10 final size:10
Alignment explanation
Indices: 174319--174353 Score: 63
Period size: 10 Copynumber: 3.6 Consensus size: 10
174309 CAATATTTCG
174319 TTTTTATTTT
1 TTTTTATTTT
174329 TTTTTATTTT
1 TTTTTATTTT
174339 TTTTT-TTTT
1 TTTTTATTTT
174348 TTTTTA
1 TTTTTA
174354 GCGAACTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 9 0.38
10 15 0.62
ACGTcount: A:0.09, C:0.00, G:0.00, T:0.91
Consensus pattern (10 bp):
TTTTTATTTT
Found at i:176345 original size:74 final size:75
Alignment explanation
Indices: 176192--176353 Score: 233
Period size: 73 Copynumber: 2.2 Consensus size: 75
176182 TTAAACTCAA
*
176192 ATTTAGGATAATATTTTAAACATTATATTTTATCTTTGTATTTTAGTTTAATAGGTTTTTAGTAT
1 ATTTAGGATATTATTTTAAACATTATATTTTATCTTTGTATTTTAGTTTAATAGGTTTTTAGTAT
176257 TTTAATTAAG
66 TTTAATTAAG
* *
176267 -TTTAGGATATTATTTT-TATATT-TATCTTTATCTTTGTATTTTAGTTTAAATAGG-TTTTAGT
1 ATTTAGGATATTATTTTAAACATTATAT-TTTATCTTTGTATTTTAGTTT-AATAGGTTTTTAGT
*
176328 ATTTTAATTATG
64 ATTTTAATTAAG
*
176340 ATTTAGAATATTAT
1 ATTTAGGATATTAT
176354 ATTATTATTT
Statistics
Matches: 79, Mismatches: 5, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
72 3 0.04
73 43 0.54
74 33 0.42
ACGTcount: A:0.30, C:0.02, G:0.10, T:0.57
Consensus pattern (75 bp):
ATTTAGGATATTATTTTAAACATTATATTTTATCTTTGTATTTTAGTTTAATAGGTTTTTAGTAT
TTTAATTAAG
Found at i:176419 original size:21 final size:21
Alignment explanation
Indices: 176387--176441 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
176377 TTTAAATAGT
176387 TTTAAG-TGTTTTAATTAGGA
1 TTTAAGATGTTTTAATTAGGA
176407 TTTAAGATGTTTTAATTAGGA
1 TTTAAGATGTTTTAATTAGGA
176428 TTTAAGATGTTTTA
1 TTTAAGATGTTTTA
176442 GCTTGTTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 6 0.18
21 28 0.82
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (21 bp):
TTTAAGATGTTTTAATTAGGA
Found at i:176441 original size:66 final size:66
Alignment explanation
Indices: 176303--176442 Score: 151
Period size: 66 Copynumber: 2.1 Consensus size: 66
176293 TTTATCTTTG
* ** *
176303 TATTTTAGTTTAAATAGGTTTTAGTATTTTAATTATGATTTAGAATATTATATTATTATTTTTAG
1 TATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAGGATTTAGAATATTATATTAGGATTTTAAG
*
176368 G
66 A
* * *
176369 TATTTTAGTTTAAATA-GTTTTAAGTGTTTTAATTAGGATTTA-AGATGTTTTAATTAGGA-TTT
1 TATTTTAGTTTAAATAGGTTTT-AGTATTTTAATTAGGATTTAGA-ATATTAT-ATTAGGATTTT
176431 AAGA
63 AAGA
*
176435 TGTTTTAG
1 TATTTTAG
176443 CTTGTTTTTA
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
65 6 0.10
66 51 0.82
67 5 0.08
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (66 bp):
TATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAGGATTTAGAATATTATATTAGGATTTTAAG
A
Found at i:178825 original size:125 final size:124
Alignment explanation
Indices: 178594--178842 Score: 473
Period size: 125 Copynumber: 2.0 Consensus size: 124
178584 TATAGAACTA
178594 GATTGAGACATTTTTTTCGGGACCTAAACTATAAAATCTTGATAGATCGAAGGCAATCAAGACCA
1 GATTGAGACATTTTTTTCGGGACCTAAACTATAAAATCTTGATAGATCGAAGGCAATCAAGACCA
178659 CCTACTCAAGTTACGTATGTGAATCAGTTCAGTAAGAGATGGAGAGACAATTATGATTT
66 CCTACTCAAGTTACGTATGTGAATCAGTTCAGTAAGAGATGGAGAGACAATTATGATTT
178718 GATTGAGACA-TTTTTTCGGGACCTAAACTATAAAATCTTGATAGATCTCGAAGGCAATCAAGAC
1 GATTGAGACATTTTTTTCGGGACCTAAACTATAAAATCTTGATAGA--TCGAAGGCAATCAAGAC
178782 CACCTACTCAAGTTACGTATGTGAATCAGTTCAGTAAGAGATGGAGAGACAATTATGATTT
64 CACCTACTCAAGTTACGTATGTGAATCAGTTCAGTAAGAGATGGAGAGACAATTATGATTT
178843 CCATGAATAT
Statistics
Matches: 123, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
123 35 0.28
124 10 0.08
125 78 0.63
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (124 bp):
GATTGAGACATTTTTTTCGGGACCTAAACTATAAAATCTTGATAGATCGAAGGCAATCAAGACCA
CCTACTCAAGTTACGTATGTGAATCAGTTCAGTAAGAGATGGAGAGACAATTATGATTT
Found at i:180588 original size:15 final size:15
Alignment explanation
Indices: 180556--180604 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
180546 TCAGATCGGA
* * *
180556 ATTCAGATATATGAT
1 ATTCGGATATGTGTT
180571 ATTC-GAGTATGTGTT
1 ATTCGGA-TATGTGTT
180586 ATTCGGATATGTGTT
1 ATTCGGATATGTGTT
180601 ATTC
1 ATTC
180605 TGATCGAATC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 2 0.07
15 26 0.87
16 2 0.07
ACGTcount: A:0.27, C:0.08, G:0.20, T:0.45
Consensus pattern (15 bp):
ATTCGGATATGTGTT
Found at i:180627 original size:29 final size:29
Alignment explanation
Indices: 180594--180650 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
180584 TTATTCGGAT
180594 ATGTGTTATTCTGATCGAATCATATATCA
1 ATGTGTTATTCTGATCGAATCATATATCA
180623 ATGTGTTATTCTGATCGAATCATATATC
1 ATGTGTTATTCTGATCGAATCATATATC
180651 GGATATGTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (29 bp):
ATGTGTTATTCTGATCGAATCATATATCA
Found at i:185330 original size:40 final size:40
Alignment explanation
Indices: 185171--185332 Score: 288
Period size: 40 Copynumber: 4.0 Consensus size: 40
185161 TGCAGGTTTA
* *
185171 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTA
1 TAATACACTTCGGTGTATATGGTGGGCACAACCTTATGTG
*
185211 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACAACCTTATGTG
*
185251 TAATACACTTCGGTGCATATGGTGGGCACAACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACAACCTTATGTG
185291 TAATACACTTCGGTGTATATGGTGGGCACAACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACAACCTTATGTG
185331 TA
1 TA
185333 GCACTACGGT
Statistics
Matches: 118, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 118 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACAACCTTATGTG
Found at i:185487 original size:45 final size:47
Alignment explanation
Indices: 185438--185529 Score: 143
Period size: 45 Copynumber: 2.0 Consensus size: 47
185428 GGCAAGTGTA
* *
185438 TTGGTAAAATAAGCTTACGAGCTTATGG-T-ACAAATGGTAAGTATT
1 TTGGTAAAATAAGCTTACAAGCTTATGGTTAACAAATGGTAAATATT
*
185483 TTGGTAAAATAAGCTTACAAGCTTATGGTTAATAAATGGTAAATATT
1 TTGGTAAAATAAGCTTACAAGCTTATGGTTAACAAATGGTAAATATT
185530 GATTGCAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
45 27 0.64
46 1 0.02
47 14 0.33
ACGTcount: A:0.38, C:0.08, G:0.20, T:0.35
Consensus pattern (47 bp):
TTGGTAAAATAAGCTTACAAGCTTATGGTTAACAAATGGTAAATATT
Found at i:189600 original size:14 final size:14
Alignment explanation
Indices: 189583--189609 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
189573 TATTTTGAAC
189583 TGTCGATTTTAAAT
1 TGTCGATTTTAAAT
189597 TGTCGATTTTAAA
1 TGTCGATTTTAAA
189610 CTACTGATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.48
Consensus pattern (14 bp):
TGTCGATTTTAAAT
Found at i:194470 original size:55 final size:55
Alignment explanation
Indices: 194412--194835 Score: 396
Period size: 55 Copynumber: 7.9 Consensus size: 55
194402 TGGCGGGTCT
* * * ** **
194412 GCTCCCTATTCTTTCAGGGAGTATAAGACTCAAACAATCTTCGGCAAACGTGTAT
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAACGTGTCC
** * * * * *
194467 GCTCCCTATTCAGTCAGGGAGTATAAGACTTGAACAATCTTCAATAAAACGGGTTC
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAA-CAAACGTGTCC
* * *
194523 GCTCTCTATTCCTTCAGAGAGTAT-AGAACTCGGAA-AATCTTCAATAAACGGGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAAG-ACTC-GAACAATCTTCAACAAACGTGTCC
* * *
194578 GCTCCCTATTCGTTCAGGGAGTAT-AGAACTCGAACAATCTTCATA-AAATGTGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAAG-ACTCGAACAATCTTCA-ACAAACGTGTCC
* * * *
194633 GCTCTCTATTCCTTTAGAGAGTAT-AGAACTCGAACAATCTTCAACGAACTTGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAAG-ACTCGAACAATCTTCAACAAACGTGTCC
* * * *
194688 GCTCCCTATTCCTTCAGAGAGTATATGACT----CAATCTTCAACGAACTTGTAC
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAACGTGTCC
* *
194739 GCTCCCTATTCCTTCAGAGAGTATAGGACT----CAATCTTCAACAAACTTGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAACGTGTCC
*
194790 GCTCCCTATTCCTTCAGAGAGTATAGGACT----CAATCTTCAACAAACG
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAACG
194836 AGTTTGCTTC
Statistics
Matches: 325, Mismatches: 37, Indels: 18
0.86 0.10 0.05
Matches are distributed among these distances:
51 113 0.35
54 4 0.01
55 164 0.50
56 41 0.13
57 3 0.01
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (55 bp):
GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAACGTGTCC
Found at i:194881 original size:38 final size:37
Alignment explanation
Indices: 194839--194910 Score: 126
Period size: 38 Copynumber: 1.9 Consensus size: 37
194829 ACAAACGAGT
194839 TTGCTTCACTACTCTTTCGTGAAGGCTTATAGATTTAA
1 TTGCTTCACTACTCTTTCGTGAAGGCTTA-AGATTTAA
*
194877 TTGCTTCACTGCTCTTTCGTGAAGGCTTAAGATT
1 TTGCTTCACTACTCTTTCGTGAAGGCTTAAGATT
194911 GACCTGTTTC
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
37 5 0.15
38 28 0.85
ACGTcount: A:0.21, C:0.19, G:0.18, T:0.42
Consensus pattern (37 bp):
TTGCTTCACTACTCTTTCGTGAAGGCTTAAGATTTAA
Found at i:196217 original size:16 final size:17
Alignment explanation
Indices: 196189--196225 Score: 67
Period size: 16 Copynumber: 2.2 Consensus size: 17
196179 CCTCCTTTTA
196189 TTTCTCTTTTTTTCATT
1 TTTCTCTTTTTTTCATT
196206 TTTCTC-TTTTTTCATT
1 TTTCTCTTTTTTTCATT
196222 TTTC
1 TTTC
196226 ATTTTTTCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.05, C:0.19, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTCTCTTTTTTTCATT
Found at i:196239 original size:16 final size:15
Alignment explanation
Indices: 196184--196233 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
196174 TGAACCCTCC
*
196184 TTTT-ATTTCTCTTT
1 TTTTCATTTTTCTTT
196198 TTTTCATTTTTCTCTT
1 TTTTCATTTTTCT-TT
*
196214 TTTTCATTTTTCATT
1 TTTTCATTTTTCTTT
196229 TTTTC
1 TTTTC
196234 TCTTTTATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
14 4 0.12
15 14 0.44
16 14 0.44
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTCATTTTTCTTT
Found at i:197110 original size:31 final size:31
Alignment explanation
Indices: 197072--197133 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
197062 GCTTTGGGCG
197072 AAATTTGTCCAATAACATCCATGCCCCACAT
1 AAATTTGTCCAATAACATCCATGCCCCACAT
197103 AAATTTGTCCAATAACATCCATGCCCCACAT
1 AAATTTGTCCAATAACATCCATGCCCCACAT
197134 TGAGAATGGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.32, G:0.06, T:0.26
Consensus pattern (31 bp):
AAATTTGTCCAATAACATCCATGCCCCACAT
Found at i:211558 original size:17 final size:16
Alignment explanation
Indices: 211521--211561 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
211511 TATTTTCCTT
* *
211521 TTATATTTACTATTTA
1 TTATTTTTAATATTTA
211537 TTATTTTTAATATTTAA
1 TTATTTTTAATATTT-A
211554 TTATTTTT
1 TTATTTTT
211562 GATAAATTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.68
Consensus pattern (16 bp):
TTATTTTTAATATTTA
Found at i:215909 original size:26 final size:28
Alignment explanation
Indices: 215880--215941 Score: 74
Period size: 31 Copynumber: 2.2 Consensus size: 28
215870 GAATCATTTC
215880 TTAAATA-A-AGATTACGAATAAGCAAA
1 TTAAATATAGAGATTACGAATAAGCAAA
215906 TTAAACAATATAGAGATTACGAATAAGCAAA
1 TT--A-AATATAGAGATTACGAATAAGCAAA
*
215937 CTAAA
1 TTAAA
215942 CAATAATCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
26 2 0.07
28 3 0.10
29 5 0.17
30 1 0.03
31 19 0.63
ACGTcount: A:0.56, C:0.10, G:0.11, T:0.23
Consensus pattern (28 bp):
TTAAATATAGAGATTACGAATAAGCAAA
Found at i:215923 original size:31 final size:31
Alignment explanation
Indices: 215888--215946 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
215878 TCTTAAATAA
*
215888 AGATTACGAATAAGCAAATTAAACAATATAG
1 AGATTACGAATAAGCAAACTAAACAATATAG
215919 AGATTACGAATAAGCAAACTAAACAATA
1 AGATTACGAATAAGCAAACTAAACAATA
215947 ATCATCTGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.56, C:0.12, G:0.12, T:0.20
Consensus pattern (31 bp):
AGATTACGAATAAGCAAACTAAACAATATAG
Found at i:217616 original size:13 final size:15
Alignment explanation
Indices: 217592--217624 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
217582 TTTTTAATAA
217592 TAAAAGTA-TTTTTT
1 TAAAAGTATTTTTTT
217606 TAAAA-TATTTTTTT
1 TAAAAGTATTTTTTT
217620 TAAAA
1 TAAAA
217625 AAAAATCGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 2 0.11
14 16 0.89
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
TAAAAGTATTTTTTT
Found at i:218049 original size:26 final size:26
Alignment explanation
Indices: 217993--218049 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
217983 TAATTTCAAT
* *
217993 TTTTTAGGATTTTTATATAAATAATA
1 TTTTTAAGATTTTTATAAAAATAATA
* *
218019 ATTTTAAG-TTTTTTTAAAAATAATTA
1 TTTTTAAGATTTTTATAAAAATAA-TA
218045 TTTTT
1 TTTTT
218050 GAAATTTGAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
25 13 0.52
26 12 0.48
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (26 bp):
TTTTTAAGATTTTTATAAAAATAATA
Found at i:218857 original size:30 final size:31
Alignment explanation
Indices: 218781--218861 Score: 89
Period size: 30 Copynumber: 2.7 Consensus size: 31
218771 GCTAGTGATT
218781 AAAATGTAATTTTTG-AAAGTTTAGTGGCTAA
1 AAAATGTAA-TTTTGAAAAGTTTAGTGGCTAA
* * *
218812 AATAT-AAATTATGAAAAGTTTAG-GGAC-AA
1 AAAATGTAATTTTGAAAAGTTTAGTGG-CTAA
218841 AAAATGTAATTTTGAAAAGTT
1 AAAATGTAATTTTGAAAAGTT
218862 ATATATTTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
29 12 0.29
30 25 0.61
31 4 0.10
ACGTcount: A:0.46, C:0.02, G:0.17, T:0.35
Consensus pattern (31 bp):
AAAATGTAATTTTGAAAAGTTTAGTGGCTAA
Found at i:232096 original size:20 final size:21
Alignment explanation
Indices: 232065--232104 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
232055 TCGGTACCAA
232065 GGGTGAGTATCGATACTAAAT
1 GGGTGAGTATCGATACTAAAT
232086 GGGTG-GTATCGATACTAAA
1 GGGTGAGTATCGATACTAAA
232105 AGGCTTAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.28
Consensus pattern (21 bp):
GGGTGAGTATCGATACTAAAT
Found at i:236635 original size:16 final size:17
Alignment explanation
Indices: 236616--236654 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
236606 ATAAATTAAA
236616 AAATATAT-ATAATAAT
1 AAATATATAATAATAAT
*
236632 AAATAT-TAATAGTAAT
1 AAATATATAATAATAAT
236648 AAATATA
1 AAATATA
236655 AAAGGGGGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 19 0.95
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (17 bp):
AAATATATAATAATAAT
Found at i:236719 original size:16 final size:16
Alignment explanation
Indices: 236684--236729 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
236674 GTTGTGGTTA
*
236684 AAATAAAAGATAAGAATT
1 AAATAAAA-A-AATAATT
236702 AAATAAAAAAATAATT
1 AAATAAAAAAATAATT
*
236718 AAATAAACAAAT
1 AAATAAAAAAAT
236730 TAAAGAGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 17 0.65
17 1 0.04
18 8 0.31
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.22
Consensus pattern (16 bp):
AAATAAAAAAATAATT
Found at i:237496 original size:19 final size:19
Alignment explanation
Indices: 237472--237522 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
237462 ACCAACTAAA
*
237472 TCGCAATGCGATCGATAAT
1 TCGCAACGCGATCGATAAT
237491 TCGCAACGCGATCGATAAT
1 TCGCAACGCGATCGATAAT
237510 TCGCAACGCGATC
1 TCGCAACGCGATC
237523 TCCGGTATCG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (19 bp):
TCGCAACGCGATCGATAAT
Found at i:237576 original size:21 final size:21
Alignment explanation
Indices: 237550--237599 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
237540 GTTTCCAGAT
*
237550 TCGCAACGCGAACTTTGACTA
1 TCGCAACGCGAACTTGGACTA
*
237571 TCGCAATGCGAACTTGGACTA
1 TCGCAACGCGAACTTGGACTA
237592 TCGCAACG
1 TCGCAACG
237600 ACTGGTGGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (21 bp):
TCGCAACGCGAACTTGGACTA
Found at i:237683 original size:21 final size:21
Alignment explanation
Indices: 237621--237838 Score: 134
Period size: 21 Copynumber: 10.6 Consensus size: 21
237611 TGCATTTGTA
237621 AATGCGATAGTCGACTATCGC
1 AATGCGATAGTCGACTATCGC
* *
237642 AATGCAAATA-T-GTA-AATCGC
1 AATGC-GATAGTCG-ACTATCGC
237662 AATGCGATAGTCGACTATCGC
1 AATGCGATAGTCGACTATCGC
** *
237683 -ATGCGAATA-TATA-AATCGC
1 AATGCG-ATAGTCGACTATCGC
* *
237702 AATACGATAATCGACTATCGC
1 AATGCGATAGTCGACTATCGC
* *
237723 AATGCGA-ACTTGTACTATCGC
1 AATGCGATAGTCG-ACTATCGC
* *
237744 ATTGCGATAATCGACTATCGC
1 AATGCGATAGTCGACTATCGC
* *
237765 AATGCGA-ACTTGGACTATCGC
1 AATGCGATA-GTCGACTATCGC
* *
237786 ATTGCGAT--T-TACATATTCGC
1 AATGCGATAGTCGAC-TA-TCGC
*
237806 ATTGCGATAGTCGACTATCGC
1 AATGCGATAGTCGACTATCGC
* *
237827 ATTGCGGTAGTC
1 AATGCGATAGTC
237839 CAAAATCGCA
Statistics
Matches: 155, Mismatches: 24, Indels: 36
0.72 0.11 0.17
Matches are distributed among these distances:
18 2 0.01
19 14 0.09
20 42 0.27
21 86 0.55
22 9 0.06
23 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.28
Consensus pattern (21 bp):
AATGCGATAGTCGACTATCGC
Found at i:237703 original size:40 final size:41
Alignment explanation
Indices: 237621--237772 Score: 209
Period size: 40 Copynumber: 3.7 Consensus size: 41
237611 TGCATTTGTA
* *
237621 AATGCGATAGTCGACTATCGCAATGCAAATATGTAAATCGC
1 AATGCGATAATCGACTATCGCAATGCGAATATGTAAATCGC
* *
237662 AATGCGATAGTCGACTATCGC-ATGCGAATATATAAATCGC
1 AATGCGATAATCGACTATCGCAATGCGAATATGTAAATCGC
* *
237702 AATACGATAATCGACTATCGCAATGCGAACT-TGTACTATCGC
1 AATGCGATAATCGACTATCGCAATGCGAA-TATGTA-AATCGC
*
237744 ATTGCGATAATCGACTATCGCAATGCGAA
1 AATGCGATAATCGACTATCGCAATGCGAA
237773 CTTGGACTAT
Statistics
Matches: 100, Mismatches: 8, Indels: 5
0.88 0.07 0.04
Matches are distributed among these distances:
40 36 0.36
41 31 0.31
42 33 0.33
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (41 bp):
AATGCGATAATCGACTATCGCAATGCGAATATGTAAATCGC
Found at i:237793 original size:42 final size:42
Alignment explanation
Indices: 237621--237774 Score: 208
Period size: 42 Copynumber: 3.7 Consensus size: 42
237611 TGCATTTGTA
* *
237621 AATGCGATAGTCGACTATCGCAATGC-AAATATGTAAATCGC
1 AATGCGATAATCGACTATCGCAATGCGAACTATGTAAATCGC
* *
237662 AATGCGATAGTCGACTATCGC-ATGCGAA-TATATAAATCGC
1 AATGCGATAATCGACTATCGCAATGCGAACTATGTAAATCGC
* *
237702 AATACGATAATCGACTATCGCAATGCGAACT-TGTACTATCGC
1 AATGCGATAATCGACTATCGCAATGCGAACTATGTA-AATCGC
*
237744 ATTGCGATAATCGACTATCGCAATGCGAACT
1 AATGCGATAATCGACTATCGCAATGCGAACT
237775 TGGACTATCG
Statistics
Matches: 102, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
40 34 0.33
41 33 0.32
42 35 0.34
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.25
Consensus pattern (42 bp):
AATGCGATAATCGACTATCGCAATGCGAACTATGTAAATCGC
Found at i:237825 original size:62 final size:63
Alignment explanation
Indices: 237714--237832 Score: 172
Period size: 62 Copynumber: 1.9 Consensus size: 63
237704 TACGATAATC
237714 GACTATCGCAATGCGAACTTGTACTATCGCATTGCGATAATCGACTATCGCAATGCGAACTTG
1 GACTATCGCAATGCGAACTTGTACTATCGCATTGCGATAATCGACTATCGCAATGCGAACTTG
* * *
237777 GACTATCGCATTGCG-A-TT-TACATATTCGCATTGCGATAGTCGACTATCGCATTGCG
1 GACTATCGCAATGCGAACTTGTAC-TA-TCGCATTGCGATAATCGACTATCGCAATGCG
237833 GTAGTCCAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
60 3 0.06
61 4 0.08
62 30 0.59
63 14 0.27
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (63 bp):
GACTATCGCAATGCGAACTTGTACTATCGCATTGCGATAATCGACTATCGCAATGCGAACTTG
Found at i:237846 original size:21 final size:21
Alignment explanation
Indices: 237802--237848 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
237792 ATTTACATAT
* **
237802 TCGCATTGCGATAGTCGACTA
1 TCGCATTGCGATAGTCCAAAA
*
237823 TCGCATTGCGGTAGTCCAAAA
1 TCGCATTGCGATAGTCCAAAA
237844 TCGCA
1 TCGCA
237849 ACGACTGGTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (21 bp):
TCGCATTGCGATAGTCCAAAA
Done.