Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003983.1 Hibiscus syriacus cultivar Beakdansim tig00008664_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: 192670
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33
Found at i:1132 original size:16 final size:17
Alignment explanation
Indices: 1100--1133 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
1090 TATTAAATAA
*
1100 TAATAAATGATTATTAT
1 TAATAAATCATTATTAT
1117 TAATAAATCA-TATTAT
1 TAATAAATCATTATTAT
1133 T
1 T
1134 TTATTTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (17 bp):
TAATAAATCATTATTAT
Found at i:11092 original size:15 final size:15
Alignment explanation
Indices: 11072--11102 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
11062 TCATAATGGA
*
11072 GCGGATGTGGGGCGG
1 GCGGATGTGAGGCGG
11087 GCGGATGTGAGGCGG
1 GCGGATGTGAGGCGG
11102 G
1 G
11103 TAAGGTCTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.10, C:0.13, G:0.65, T:0.13
Consensus pattern (15 bp):
GCGGATGTGAGGCGG
Found at i:11996 original size:29 final size:29
Alignment explanation
Indices: 11962--12031 Score: 131
Period size: 29 Copynumber: 2.4 Consensus size: 29
11952 GCAATGCTCT
11962 ATAGTCGGAGGATCATTTTGTAACTTTTA
1 ATAGTCGGAGGATCATTTTGTAACTTTTA
*
11991 ATAGTCGAAGGATCATTTTGTAACTTTTA
1 ATAGTCGGAGGATCATTTTGTAACTTTTA
12020 ATAGTCGGAGGA
1 ATAGTCGGAGGA
12032 CTCAGTAAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.30, C:0.10, G:0.23, T:0.37
Consensus pattern (29 bp):
ATAGTCGGAGGATCATTTTGTAACTTTTA
Found at i:16573 original size:14 final size:15
Alignment explanation
Indices: 16548--16576 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
16538 TGCGAAAGCT
16548 TGGAATGACGAATGA
1 TGGAATGACGAATGA
16563 TGGAA-GACGAATGA
1 TGGAATGACGAATGA
16577 ATATTATTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.41, C:0.07, G:0.34, T:0.17
Consensus pattern (15 bp):
TGGAATGACGAATGA
Found at i:18873 original size:19 final size:19
Alignment explanation
Indices: 18849--18901 Score: 106
Period size: 19 Copynumber: 2.8 Consensus size: 19
18839 CGAATGACAT
18849 TAGTGCATCGATGCATAAG
1 TAGTGCATCGATGCATAAG
18868 TAGTGCATCGATGCATAAG
1 TAGTGCATCGATGCATAAG
18887 TAGTGCATCGATGCA
1 TAGTGCATCGATGCA
18902 CCCCCTTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (19 bp):
TAGTGCATCGATGCATAAG
Found at i:19761 original size:21 final size:21
Alignment explanation
Indices: 19735--19788 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
19725 TTATATGTGT
19735 TCCTTCGGGACATCTAAGTGG
1 TCCTTCGGGACATCTAAGTGG
*
19756 TCCTTCAGGACATCTAAGTGG
1 TCCTTCGGGACATCTAAGTGG
19777 TCCTTCGGGACA
1 TCCTTCGGGACA
19789 AATTCTATGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.20, C:0.26, G:0.26, T:0.28
Consensus pattern (21 bp):
TCCTTCGGGACATCTAAGTGG
Found at i:23048 original size:19 final size:19
Alignment explanation
Indices: 23024--23114 Score: 164
Period size: 19 Copynumber: 4.8 Consensus size: 19
23014 CGAATGCCAT
23024 TAGTGCATCGATGCATAAA
1 TAGTGCATCGATGCATAAA
23043 TAGTGCATCGATGCATAAA
1 TAGTGCATCGATGCATAAA
23062 TAGTGCATCGATGCATAAA
1 TAGTGCATCGATGCATAAA
* *
23081 TAGTGCATCAATGCATAAG
1 TAGTGCATCGATGCATAAA
23100 TAGTGCATCGATGCA
1 TAGTGCATCGATGCA
23115 CCCCCTTAAA
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 69 1.00
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.26
Consensus pattern (19 bp):
TAGTGCATCGATGCATAAA
Found at i:24565 original size:64 final size:64
Alignment explanation
Indices: 24495--24657 Score: 229
Period size: 65 Copynumber: 2.5 Consensus size: 64
24485 CGGTGCACCA
*
24495 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTGA-TGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCCAGAGTGCATCGATGCATGG
** **
24559 CTTGTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCCAGAGTGCATCGATGCATGG
* * *
24624 AGAGTGCATCGGTGCATGGAATGCATTCGATGTT
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTT
24658 CAATTAATTC
Statistics
Matches: 87, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
64 41 0.47
65 46 0.53
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (64 bp):
AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCAGAGTGCATCGATGCATGG
Found at i:24629 original size:19 final size:19
Alignment explanation
Indices: 24605--24655 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
24595 GAAAATATTC
24605 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
24624 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
24643 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
24656 TTCAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:32997 original size:64 final size:63
Alignment explanation
Indices: 32929--33109 Score: 209
Period size: 64 Copynumber: 2.8 Consensus size: 63
32919 TTGGAACACT
* *** *
32929 TGATGCATCGGTGCACCAAGTGTGCATCGATGCATGAAATTCATTCGATGTTTGAAAAATAGCC
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCC
** * **
32993 TGATGCATCGATGCATGGCTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTC
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCC
* * * *
33057 AGAGTGCATCGATGCATGGAGAGTGCATCGGTGCATGGAATGCATTCGATGTT
1 TGA-TGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTT
33110 CAATTAATTC
Statistics
Matches: 98, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
64 53 0.54
65 45 0.46
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (63 bp):
TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCC
Found at i:33081 original size:19 final size:19
Alignment explanation
Indices: 33057--33107 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
33047 GAAAATATTC
33057 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
33076 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
33095 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
33108 TTCAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:33083 original size:65 final size:65
Alignment explanation
Indices: 32950--33109 Score: 207
Period size: 65 Copynumber: 2.5 Consensus size: 65
32940 TGCACCAAGT
* * ***
32950 GTGCATCGATGCATGAAATTCATTCGATG-TTTGAAAAATAGCCTGATGCATCGATGCATGGCTT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGATGCATCGATGCATGGAGA
* **
33014 GTGCATCGATGCATCAAATGCATTCGATGTTTTG-AAAATATTCAGAGTGCATCGATGCATGGAG
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGA-TGCATCGATGCATGGAG
33078 A
65 A
* *
33079 GTGCATCGGTGCATGGAATGCATTCGATGTT
1 GTGCATCGATGCATGAAATGCATTCGATGTT
33110 CAATTAATTC
Statistics
Matches: 83, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
64 36 0.43
65 47 0.57
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGATGCATCGATGCATGGAGA
Found at i:33149 original size:65 final size:63
Alignment explanation
Indices: 32951--33158 Score: 183
Period size: 65 Copynumber: 3.2 Consensus size: 63
32941 GCACCAAGTG
* * * ** * *
32951 TGCATCGATGCATGAAATTCATTCGATGTTTGAAAAATAGCCTGATGCATCGATGCATGGCTTG-
1 TGCATCGGTGCATGAAATGCATTCGATGTTT-CAAAATATTCAGATGCATCGATGCATGAC-TGA
* * *
33015 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGGA--G
1 TGCATCGGTGCATGAAATGCATTCGATG-TTTCAAAATATTCAGA-TGCATCGATGCAT-GACTG
33078 A
63 A
* *
33079 GTGCATCGGTGCATGGAATGCATTCGATG-TTC-AATTAATTCATCGATGCATCGATGCATGTAC
1 -TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAAT-ATTCA--GATGCATCGATGCATG-AC
33142 TGA
61 TGA
33145 TGCATCGGTGCATG
1 TGCATCGGTGCATG
33159 CCTTTGAATA
Statistics
Matches: 121, Mismatches: 12, Indels: 21
0.79 0.08 0.14
Matches are distributed among these distances:
62 3 0.02
63 9 0.07
64 49 0.40
65 57 0.47
66 3 0.02
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (63 bp):
TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAATATTCAGATGCATCGATGCATGACTGA
Found at i:33697 original size:15 final size:15
Alignment explanation
Indices: 33679--33714 Score: 58
Period size: 13 Copynumber: 2.5 Consensus size: 15
33669 ATTATATGAA
33679 ATGTGATAAAGAACT
1 ATGTGATAAAGAACT
33694 ATGTG--AAAGAACT
1 ATGTGATAAAGAACT
33707 ATGTGATA
1 ATGTGATA
33715 TCAATATGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 13 0.68
15 6 0.32
ACGTcount: A:0.44, C:0.06, G:0.22, T:0.28
Consensus pattern (15 bp):
ATGTGATAAAGAACT
Found at i:40169 original size:23 final size:23
Alignment explanation
Indices: 40143--40202 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 23
40133 AGTGTTCGCA
40143 AACATGTTCGTTTAACATTCGTG
1 AACATGTTCGTTTAACATTCGTG
* * * * *
40166 AACATATTCATTTAGCATTTGTT
1 AACATGTTCGTTTAACATTCGTG
* *
40189 TATATGTTCGTTTA
1 AACATGTTCGTTTA
40203 GTTTCCATTT
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.47
Consensus pattern (23 bp):
AACATGTTCGTTTAACATTCGTG
Found at i:42535 original size:59 final size:59
Alignment explanation
Indices: 42465--42596 Score: 180
Period size: 59 Copynumber: 2.2 Consensus size: 59
42455 ATAGTCAGAT
*
42465 GATCATTTTGTAACTTTTAATAGTC-GAGGCACTCAACAAAGTA-ATTCCCTATAG-TCGGG
1 GATCATTTTGTAACTTTTAATAGTCGGAGG-ACTCAACAAAGTATA-T-CCTATAGTTAGGG
*
42524 GATCATTTTGTAACTTTTAATATTCGGAGGACTCAACAAAGTATATCCTATAGTTAGGG
1 GATCATTTTGTAACTTTTAATAGTCGGAGGACTCAACAAAGTATATCCTATAGTTAGGG
*
42583 GACCATTTGTGTAA
1 GATCATTT-TGTAA
42597 TTTACCCTAT
Statistics
Matches: 66, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
58 7 0.11
59 49 0.74
60 10 0.15
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (59 bp):
GATCATTTTGTAACTTTTAATAGTCGGAGGACTCAACAAAGTATATCCTATAGTTAGGG
Found at i:45850 original size:13 final size:13
Alignment explanation
Indices: 45832--45859 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
45822 GCCTAGTTAC
45832 ATTTTAGGCCAAA
1 ATTTTAGGCCAAA
45845 ATTTTAGGCCAAA
1 ATTTTAGGCCAAA
45858 AT
1 AT
45860 GAAAGAAAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.32
Consensus pattern (13 bp):
ATTTTAGGCCAAA
Found at i:48126 original size:30 final size:30
Alignment explanation
Indices: 48090--48153 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
48080 GAATGACCTG
* *
48090 TCCAGAGGTTACAAAGAACCCCGGTAACTA
1 TCCAGAGGTCACAAAGAACCCCGGCAACTA
* * *
48120 TCCAGAGGTCATAAAGATCCTCGGCAACTA
1 TCCAGAGGTCACAAAGAACCCCGGCAACTA
48150 TCCA
1 TCCA
48154 TATGTTCCTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.19
Consensus pattern (30 bp):
TCCAGAGGTCACAAAGAACCCCGGCAACTA
Found at i:48940 original size:64 final size:65
Alignment explanation
Indices: 48827--48977 Score: 200
Period size: 64 Copynumber: 2.3 Consensus size: 65
48817 TCTTTCAATG
* * * * *
48827 AAGGTATGCATCGATGCACTA-CTTATGCATCGGTGCATAAAATGAATTCGATGTTTTTATTTTA
1 AAGGAATGCATCGATGCATTATCTTATGCATCGATGCATAAAAGGAATTCGATGTTCTTATTTT-
48891 A
65 A
* *
48892 AAGG-ATGCATCGATGCATTATC-TATGCATCGATGCATAAAAGGCATTCGATGTTCTTCTTTTA
1 AAGGAATGCATCGATGCATTATCTTATGCATCGATGCATAAAAGGAATTCGATGTTCTTATTTTA
48955 AAGGAATGCATCGATGCACTTAT
1 AAGGAATGCATCGATGCA-TTAT
48978 GAATGTGCAT
Statistics
Matches: 77, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
63 5 0.06
64 63 0.82
65 9 0.12
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.34
Consensus pattern (65 bp):
AAGGAATGCATCGATGCATTATCTTATGCATCGATGCATAAAAGGAATTCGATGTTCTTATTTTA
Found at i:49912 original size:2 final size:2
Alignment explanation
Indices: 49896--49956 Score: 104
Period size: 2 Copynumber: 30.5 Consensus size: 2
49886 TTATAATTGT
* *
49896 TA TA TA CA TA CA 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
49938 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
49957 CCACTCTTTA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:50708 original size:21 final size:21
Alignment explanation
Indices: 50684--50747 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
50674 GCAAATTCGC
50684 GTTGCATTTCGCGTTGCGATA
1 GTTGCATTTCGCGTTGCGATA
* **
50705 GTTGAAAATCGCGTTGCGAT-
1 GTTGCATTTCGCGTTGCGATA
* *
50725 TTTCCATTTCGCGTTGCGATA
1 GTTGCATTTCGCGTTGCGATA
50746 GT
1 GT
50748 CTACAGTTGC
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
20 15 0.45
21 18 0.55
ACGTcount: A:0.17, C:0.19, G:0.27, T:0.38
Consensus pattern (21 bp):
GTTGCATTTCGCGTTGCGATA
Found at i:50758 original size:16 final size:16
Alignment explanation
Indices: 50737--50772 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
50727 TCCATTTCGC
50737 GTTGCGATAGTCTACA
1 GTTGCGATAGTCTACA
50753 GTTGCGATAGTCTACA
1 GTTGCGATAGTCTACA
50769 GTTG
1 GTTG
50773 TCGTCTACAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (16 bp):
GTTGCGATAGTCTACA
Found at i:50780 original size:13 final size:13
Alignment explanation
Indices: 50762--50789 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
50752 AGTTGCGATA
50762 GTCTACAGTTGTC
1 GTCTACAGTTGTC
50775 GTCTACAGTTGTC
1 GTCTACAGTTGTC
50788 GT
1 GT
50790 TGCGATAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.21, G:0.25, T:0.39
Consensus pattern (13 bp):
GTCTACAGTTGTC
Found at i:50884 original size:6 final size:6
Alignment explanation
Indices: 50873--50956 Score: 147
Period size: 6 Copynumber: 14.5 Consensus size: 6
50863 GACACGTATT
50873 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
50921 ACCACG ACCACG ACCACG ACC-CG ACC-CG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
50957 CGAGACGAGA
Statistics
Matches: 78, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
5 15 0.19
6 63 0.81
ACGTcount: A:0.31, C:0.52, G:0.17, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:51464 original size:6 final size:6
Alignment explanation
Indices: 51443--51479 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
51433 TCTCGTCTCG
51443 GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
51480 AATACGTGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 10 0.32
6 21 0.68
ACGTcount: A:0.00, C:0.16, G:0.54, T:0.30
Consensus pattern (6 bp):
GGTCGT
Found at i:51605 original size:22 final size:22
Alignment explanation
Indices: 51578--51693 Score: 175
Period size: 22 Copynumber: 5.4 Consensus size: 22
51568 AATTTGGAAA
51578 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
51600 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
51622 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* * **
51644 ATCGCAACG--AA-TTTGGAAA
1 ATCGCAACGACAACTGTAGACT
51663 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
51685 ATCGCAACG
1 ATCGCAACG
51694 CGAAATGGAA
Statistics
Matches: 83, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
19 13 0.16
20 2 0.02
21 2 0.02
22 66 0.80
ACGTcount: A:0.37, C:0.26, G:0.19, T:0.18
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:51679 original size:41 final size:41
Alignment explanation
Indices: 51556--51711 Score: 206
Period size: 41 Copynumber: 3.7 Consensus size: 41
51546 CTTTTTTTTA
*
51556 ACTATCACAACGAATTTGGAAAATCGCAACGACAACTGTAG
1 ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
* * **
51597 ACTATCGCAACGACAACTGTAGACTATCGCAACGACAACTGTAG
1 ACTATCGCAACG--AA-TTTGGAAAATCGCAACGACAACTGTAG
51641 ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
1 ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
*
51682 ACTATCGCAACGCGAA-ATGGAAAATCGCAA
1 ACTATCGCAA--CGAATTTGGAAAATCGCAA
51712 TGCGATTTTC
Statistics
Matches: 100, Mismatches: 10, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
41 44 0.44
42 15 0.15
43 6 0.06
44 35 0.35
ACGTcount: A:0.40, C:0.24, G:0.19, T:0.18
Consensus pattern (41 bp):
ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
Found at i:51710 original size:20 final size:20
Alignment explanation
Indices: 51685--51753 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
51675 ACTGTAGACT
51685 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
* ** ** *
51705 ATCGCAATGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAA-A
51726 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
51746 ATCGCAAC
1 ATCGCAAC
51754 AGGATTTTCA
Statistics
Matches: 36, Mismatches: 12, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
20 22 0.61
21 14 0.39
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.17
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:51727 original size:41 final size:41
Alignment explanation
Indices: 51682--51782 Score: 177
Period size: 41 Copynumber: 2.5 Consensus size: 41
51672 ACAACTGTAG
*
51682 ACTATCGCAACGCGAAATGGAAAATCGCAA-TGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACAG-GATTTTCA
51723 ACTATCGCAACGCGAAATGGAAAATCGCAACAGGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACAGGATTTTCA
51764 ACTATCGCAACGCGAAATG
1 ACTATCGCAACGCGAAATG
51783 CAACGCGAAT
Statistics
Matches: 58, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
41 57 0.98
42 1 0.02
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.20
Consensus pattern (41 bp):
ACTATCGCAACGCGAAATGGAAAATCGCAACAGGATTTTCA
Found at i:51730 original size:63 final size:63
Alignment explanation
Indices: 51574--51734 Score: 159
Period size: 63 Copynumber: 2.5 Consensus size: 63
51564 AACGAATTTG
** * *
51574 GAAAATCGCAACGACAACTGTAGACTATCGCAACGACAACTGTAGACTATCGCAACGACAACTGT
1 GAAAATCGCAACGA-ATTTGCA-ACTATCGCAACGACAACTGTAGACTATCGCAACGACAAATG-
51639 A
63 A
** * *
51640 GACTATCGCAACGAATTTGGAA-AATCGCAACGACAACTGTAGACTATCGCAACG-CGAAATG-
1 GAAAATCGCAACGAATTTGCAACTATCGCAACGACAACTGTAGACTATCGCAACGAC-AAATGA
*
51701 GAAAATCGCAATGCG-ATTTTCAACTATCGCAACG
1 GAAAATCGCAA--CGAATTTGCAACTATCGCAACG
51735 CGAAATGGAA
Statistics
Matches: 79, Mismatches: 12, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
61 9 0.11
62 7 0.09
63 46 0.58
64 1 0.01
65 4 0.05
66 12 0.15
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.19
Consensus pattern (63 bp):
GAAAATCGCAACGAATTTGCAACTATCGCAACGACAACTGTAGACTATCGCAACGACAAATGA
Found at i:51786 original size:21 final size:21
Alignment explanation
Indices: 51682--51786 Score: 81
Period size: 21 Copynumber: 5.1 Consensus size: 21
51672 ACAACTGTAG
*
51682 ACTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGAAATGCA
* * ** *
51703 A-AATCGCAATGCGATTTTCA
1 ACTATCGCAACGCGAAATGCA
*
51723 ACTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGAAATGCA
* ** *
51744 A-AATCGCAACAG-GATTTTCA
1 ACTATCGCAAC-GCGAAATGCA
51764 ACTATCGCAACGCGAAATGCA
1 ACTATCGCAACGCGAAATGCA
51785 AC
1 AC
51787 GCGAATTTGC
Statistics
Matches: 59, Mismatches: 21, Indels: 8
0.67 0.24 0.09
Matches are distributed among these distances:
20 28 0.47
21 31 0.53
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.19
Consensus pattern (21 bp):
ACTATCGCAACGCGAAATGCA
Found at i:53951 original size:25 final size:25
Alignment explanation
Indices: 53901--53951 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
53891 TAGTAGGTAT
**
53901 GGCAGGGAGTGGTGGTGTTTGGTTG
1 GGCAGGGAGTGGTGGTGTTTAATTG
*
53926 GGCAGTGAGTGGT-GTGTGTTAATTG
1 GGCAGGGAGTGGTGGTGT-TTAATTG
53951 G
1 G
53952 TGGGTTGAGC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.12, C:0.04, G:0.51, T:0.33
Consensus pattern (25 bp):
GGCAGGGAGTGGTGGTGTTTAATTG
Found at i:54908 original size:32 final size:33
Alignment explanation
Indices: 54872--54953 Score: 87
Period size: 32 Copynumber: 2.5 Consensus size: 33
54862 AATAGTAAAA
* *
54872 TTTAAATAGAA-ATAAGTCCATAAA-CTAATATT
1 TTTAAATAAAAGATAA-TACATAAAGCTAATATT
*
54904 TTTAAATAAAAGATAATACATAAAGTTAATATT
1 TTTAAATAAAAGATAATACATAAAGCTAATATT
* *
54937 TTAAAATTAAAATATAA
1 TTTAAA-TAAAAGATAA
54954 AAATCAAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
32 17 0.40
33 16 0.38
34 9 0.21
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (33 bp):
TTTAAATAAAAGATAATACATAAAGCTAATATT
Found at i:57344 original size:2 final size:2
Alignment explanation
Indices: 57337--57361 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
57327 GGAAACCAAT
57337 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
57362 TCAGGATAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:58113 original size:18 final size:20
Alignment explanation
Indices: 58090--58129 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
58080 AATGTCTTTT
58090 AAAAAT-AATTTTAAGA-AA
1 AAAAATCAATTTTAAGACAA
*
58108 AAAAATCATTTTTAAGACAA
1 AAAAATCAATTTTAAGACAA
58128 AA
1 AA
58130 GCTAGTCTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 9 0.47
20 4 0.21
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (20 bp):
AAAAATCAATTTTAAGACAA
Found at i:60205 original size:22 final size:24
Alignment explanation
Indices: 60166--60238 Score: 71
Period size: 26 Copynumber: 3.0 Consensus size: 24
60156 GTTCTGCACA
60166 AATATAAATAA-AACTAAT-TA-AT
1 AATAT-AATAATAACTAATATATAT
*
60188 AATATAATAATAATTAATATATAT
1 AATATAATAATAACTAATATATAT
* *
60212 AGTATATAATAATAAATATTATATAT
1 A--ATATAATAATAACTAATATATAT
60238 A
1 A
60239 TTTTAATCCC
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
21 5 0.12
22 11 0.26
23 2 0.05
24 3 0.07
26 22 0.51
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (24 bp):
AATATAATAATAACTAATATATAT
Found at i:60223 original size:26 final size:26
Alignment explanation
Indices: 60189--60238 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
60179 CTAATTAATA
*
60189 ATATAATAATAATTAATATATATAGT
1 ATATAATAATAAATAATATATATAGT
*
60215 ATATAATAATAAATATTATATATA
1 ATATAATAATAAATAATATATATA
60239 TTTTAATCCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (26 bp):
ATATAATAATAAATAATATATATAGT
Found at i:60224 original size:23 final size:21
Alignment explanation
Indices: 60189--60239 Score: 68
Period size: 23 Copynumber: 2.4 Consensus size: 21
60179 CTAATTAATA
*
60189 ATATA-ATAATAATTAATATAT
1 ATATATATAATAATAAATAT-T
60210 ATAGTATATAATAATAAATATT
1 ATA-TATATAATAATAAATATT
60232 ATATATAT
1 ATATATAT
60240 TTTAATCCCA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 8 0.30
22 6 0.22
23 13 0.48
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
ATATATATAATAATAAATATT
Found at i:60236 original size:19 final size:19
Alignment explanation
Indices: 60180--60238 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 19
60170 TAAATAAAAC
* *
60180 TAATTAATAATATA-ATAA
1 TAATAAATATTATATATAA
60198 TAATTAATATATATAGTATATAA
1 TAA-TAA-ATAT-TA-TATATAA
60221 TAATAAATATTATATATA
1 TAATAAATATTATATATA
60239 TTTTAATCCC
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
18 3 0.09
19 8 0.24
20 5 0.15
21 6 0.18
22 5 0.15
23 7 0.21
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (19 bp):
TAATAAATATTATATATAA
Found at i:61037 original size:14 final size:14
Alignment explanation
Indices: 61018--61048 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
61008 TCAAACTTAA
61018 AACGCTTCAATTTT
1 AACGCTTCAATTTT
61032 AACGCTTCAATTTT
1 AACGCTTCAATTTT
61046 AAC
1 AAC
61049 ACTGAAGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.32, C:0.23, G:0.06, T:0.39
Consensus pattern (14 bp):
AACGCTTCAATTTT
Found at i:62427 original size:215 final size:213
Alignment explanation
Indices: 62045--62475 Score: 828
Period size: 215 Copynumber: 2.0 Consensus size: 213
62035 AATCTTTTTT
62045 TTTTTTTTTTTGCTTTTGTTTAATTATCTTCCCACAACATAGTAAAGTGTGTAGTTACTTCATTC
1 TTTTTTTTTTTGCTTTTGTTTAATTATCTTCCCACAACATAGTAAAGTGTGTAGTTACTTCATTC
62110 AGATACAAGGCAAACCAAACTGGTTCAGGAAATTACTTCCTGCTGAGAGGAAAAAATCTGGACTC
66 AGATACAAGGCAAACCAAACTGGTTCAGGAAATTACTTCCTGCTGAGAGGAAAAAATCTGGACTC
62175 TAGAACTGAATTGTAAAGTGTGTAGTTTGAAATTTCGTTGACAATCATCTTCGTTCTGATAAAGA
131 TAGAACTGAATTGTAAAGTGTGTAGTTTGAAATTTCGTTGACAATCATCTTCGTTCTGATAAAGA
62240 TAATGTTATTTAAGACCA
196 TAATGTTATTTAAGACCA
62258 TTTTTTTTTTTGCTTTTGTTTAATTATCTTCCCACAACATAGTAAAGTGTGTAGTTACTTCATTC
1 TTTTTTTTTTTGCTTTTGTTTAATTATCTTCCCACAACATAGTAAAGTGTGTAGTTACTTCATTC
62323 AGATACAAGGCAAACACAAACTTGGTTTCAGGAAATTACTTCCTGCTGAGAGG-AAAAATCTGGA
66 AGATACAAGGCAAAC-CAAAC-TGG-TTCAGGAAATTACTTCCTGCTGAGAGGAAAAAATCTGGA
62387 CTCTAGAACTGAATTGTAAAGTGTGTAGTTTGAAATTTCGTTGACAATCATCTTCGTTCTGATAA
128 CTCTAGAACTGAATTGTAAAGTGTGTAGTTTGAAATTTCGTTGACAATCATCTTCGTTCTGATAA
62452 AGATAATGTTATTTAAGACCA
193 AGATAATGTTATTTAAGACCA
62473 TTT
1 TTT
62476 GGTTAAGATT
Statistics
Matches: 215, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
213 80 0.37
214 5 0.02
215 103 0.48
216 27 0.13
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (213 bp):
TTTTTTTTTTTGCTTTTGTTTAATTATCTTCCCACAACATAGTAAAGTGTGTAGTTACTTCATTC
AGATACAAGGCAAACCAAACTGGTTCAGGAAATTACTTCCTGCTGAGAGGAAAAAATCTGGACTC
TAGAACTGAATTGTAAAGTGTGTAGTTTGAAATTTCGTTGACAATCATCTTCGTTCTGATAAAGA
TAATGTTATTTAAGACCA
Found at i:63339 original size:25 final size:25
Alignment explanation
Indices: 63311--63393 Score: 71
Period size: 25 Copynumber: 3.2 Consensus size: 25
63301 AGGAGGAGAA
63311 GGGAAACCAGCTGAAAGGAGTGATG
1 GGGAAACCAGCTGAAAGGAGTGATG
* * *
63336 GGGACACAAACTGTGATGAAGGAG-GA-G
1 GGGAAACCAGC--TGA--AAGGAGTGATG
63363 AAGGGAAACCAGCTGAAAGGAGTGATG
1 --GGGAAACCAGCTGAAAGGAGTGATG
63390 GGGA
1 GGGA
63394 CACAAACTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 16
0.67 0.09 0.24
Matches are distributed among these distances:
25 18 0.41
26 2 0.05
27 8 0.18
28 2 0.05
29 14 0.32
ACGTcount: A:0.37, C:0.11, G:0.41, T:0.11
Consensus pattern (25 bp):
GGGAAACCAGCTGAAAGGAGTGATG
Found at i:63358 original size:29 final size:29
Alignment explanation
Indices: 63325--63413 Score: 91
Period size: 29 Copynumber: 3.2 Consensus size: 29
63315 AACCAGCTGA
63325 AAGGAGTGATGGGGACACAAACTGTGATG
1 AAGGAGTGATGGGGACACAAACTGTGATG
* * *
63354 AAGGAG-GA-GAAGGGAAACCAGC--TGA--
1 AAGGAGTGATG--GGGACACAAACTGTGATG
63379 AAGGAGTGATGGGGACACAAACTGTGATG
1 AAGGAGTGATGGGGACACAAACTGTGATG
63408 AAGGAG
1 AAGGAG
63414 AGCAAGTAGT
Statistics
Matches: 46, Mismatches: 6, Indels: 16
0.68 0.09 0.24
Matches are distributed among these distances:
25 14 0.30
26 2 0.04
27 8 0.17
28 2 0.04
29 20 0.43
ACGTcount: A:0.38, C:0.10, G:0.39, T:0.12
Consensus pattern (29 bp):
AAGGAGTGATGGGGACACAAACTGTGATG
Found at i:63383 original size:54 final size:54
Alignment explanation
Indices: 63301--63413 Score: 226
Period size: 54 Copynumber: 2.1 Consensus size: 54
63291 AGTTGGGCTG
63301 AGGAGGAGAAGGGAAACCAGCTGAAAGGAGTGATGGGGACACAAACTGTGATGA
1 AGGAGGAGAAGGGAAACCAGCTGAAAGGAGTGATGGGGACACAAACTGTGATGA
63355 AGGAGGAGAAGGGAAACCAGCTGAAAGGAGTGATGGGGACACAAACTGTGATGA
1 AGGAGGAGAAGGGAAACCAGCTGAAAGGAGTGATGGGGACACAAACTGTGATGA
63409 AGGAG
1 AGGAG
63414 AGCAAGTAGT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 59 1.00
ACGTcount: A:0.39, C:0.11, G:0.40, T:0.11
Consensus pattern (54 bp):
AGGAGGAGAAGGGAAACCAGCTGAAAGGAGTGATGGGGACACAAACTGTGATGA
Found at i:63713 original size:18 final size:19
Alignment explanation
Indices: 63690--63733 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
63680 TTTAAGTAGT
*
63690 AATAAAAACGATT-AAGTA
1 AATAAAAACAATTAAAGTA
*
63708 AATAAAAGCAATTAAAGTA
1 AATAAAAACAATTAAAGTA
63727 AA-AAAAA
1 AATAAAAA
63734 TAAGAAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.68, C:0.05, G:0.09, T:0.18
Consensus pattern (19 bp):
AATAAAAACAATTAAAGTA
Found at i:65416 original size:14 final size:14
Alignment explanation
Indices: 65398--65435 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
65388 GTTTTCCATT
*
65398 TTTTTCTTTCATGTC
1 TTTTTCTTTC-TCTC
65413 TTTTT-TTTCTCTC
1 TTTTTCTTTCTCTC
65426 TTTTTCTTTC
1 TTTTTCTTTC
65436 GAACAGCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 8 0.38
14 8 0.38
15 5 0.24
ACGTcount: A:0.03, C:0.21, G:0.03, T:0.74
Consensus pattern (14 bp):
TTTTTCTTTCTCTC
Found at i:65468 original size:32 final size:33
Alignment explanation
Indices: 65413--65496 Score: 95
Period size: 32 Copynumber: 2.6 Consensus size: 33
65403 CTTTCATGTC
*
65413 TTTTTTTT-CTCTCTTT-TTCTTTCGAACAGCT-
1 TTTTTTTTCCT-TCTTTCTTTTTTCGAACAGCTA
* *
65444 TTTTCTTTT-CTTTTTTCTTTTTTCGAACTGCTA
1 TTTT-TTTTCCTTCTTTCTTTTTTCGAACAGCTA
65477 TTTTTTTTCCTTCTTTCTTT
1 TTTTTTTTCCTTCTTTCTTT
65497 CATTCAACAT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
31 8 0.18
32 23 0.51
33 14 0.31
ACGTcount: A:0.07, C:0.20, G:0.05, T:0.68
Consensus pattern (33 bp):
TTTTTTTTCCTTCTTTCTTTTTTCGAACAGCTA
Found at i:66580 original size:20 final size:20
Alignment explanation
Indices: 66555--66610 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
66545 TTTGTCGTTT
*
66555 AATGAAATTGGCATATTTCA
1 AATGAAATTGGCATAGTTCA
*
66575 AATGAAATTAGCATAGTTCA
1 AATGAAATTGGCATAGTTCA
66595 AATGAAATTGGCATAG
1 AATGAAATTGGCATAG
66611 AAATATTTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.43, C:0.09, G:0.18, T:0.30
Consensus pattern (20 bp):
AATGAAATTGGCATAGTTCA
Found at i:66843 original size:18 final size:19
Alignment explanation
Indices: 66820--66862 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
66810 TTTAAGTAGT
*
66820 AATAAAAACGATT-AAGTA
1 AATAAAAACAATTAAAGTA
*
66838 AATAAAAGCAATTAAAGTA
1 AATAAAAACAATTAAAGTA
66857 AA-AAAA
1 AATAAAA
66863 TAAGAAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.67, C:0.05, G:0.09, T:0.19
Consensus pattern (19 bp):
AATAAAAACAATTAAAGTA
Found at i:72236 original size:18 final size:19
Alignment explanation
Indices: 72215--72252 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
72205 CTTAGATTTA
72215 TCTCCTTCC-TTTAA-GGGT
1 TCTCC-TCCATTTAATGGGT
72233 TCTCCTCCATTTAATGGGT
1 TCTCCTCCATTTAATGGGT
72252 T
1 T
72253 TAGGGTTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 3 0.17
18 10 0.56
19 5 0.28
ACGTcount: A:0.13, C:0.26, G:0.16, T:0.45
Consensus pattern (19 bp):
TCTCCTCCATTTAATGGGT
Found at i:76431 original size:229 final size:227
Alignment explanation
Indices: 76026--76474 Score: 785
Period size: 229 Copynumber: 2.0 Consensus size: 227
76016 GTAAATTATC
* * *
76026 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
**
76091 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
66 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
76156 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAA-AAATTT
131 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAA-TT
76220 GAAACATAAATTACATAACTTTCAAAAAAGTATA
195 GAAACATAAATTACATAACTTT-AAAAAAGTATA
*
76254 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATATTTAG
76319 TTAATATTGTTAAATTT-AAATGCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAAT
65 TTAATATTGTTAAATTTAAAAT-CTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAAT
*
76383 TTTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAAT
129 TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAAT
76448 TGAAACATAAATTACATAACTTTAAAA
194 TGAAACATAAATTACATAACTTTAAAA
76475 GCAGTTTTAA
Statistics
Matches: 211, Mismatches: 7, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
228 44 0.21
229 164 0.78
230 3 0.01
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (227 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAATTG
AAACATAAATTACATAACTTTAAAAAAGTATA
Found at i:76563 original size:20 final size:19
Alignment explanation
Indices: 76540--76585 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
76530 CGATATACCA
76540 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
76560 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
76580 GGTAAA
1 GGTAAA
76586 TTTAAAAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.54, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:76729 original size:20 final size:19
Alignment explanation
Indices: 76706--76752 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
76696 CGATATAACA
*
76706 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAAAC
*
76726 GGTATCAAAATGATAAAAAC
1 GGTA-AAAAATGATAAAAAC
76746 GGTAAAA
1 GGTAAAA
76753 TGATACCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.55, C:0.09, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAAAC
Found at i:79095 original size:33 final size:33
Alignment explanation
Indices: 79053--79118 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
79043 AAATAGATGG
*
79053 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
***
79086 AGTGGTGAAAGAAGTTTCGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
79119 TATTAAGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.29, C:0.02, G:0.45, T:0.24
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:80951 original size:19 final size:19
Alignment explanation
Indices: 80907--80950 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
80897 AATGTCGAGT
80907 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
80926 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
80945 T-ATTTT
1 TAATTTT
80951 TTTATGTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:81466 original size:199 final size:199
Alignment explanation
Indices: 81033--82253 Score: 2277
Period size: 198 Copynumber: 6.1 Consensus size: 199
81023 TTAAGGGTCA
* *
81033 TGTCGATACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
81098 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
*
81163 TAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
131 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
81228 AATG
196 AATG
*
81232 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
81297 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
*
81362 TAATCTGTAA-TTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
131 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
81426 AATG
196 AATG
*
81430 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
81495 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
81560 TAATATGTAATTTTT-AATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
131 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
81624 AATG
196 AATG
81628 TGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
81692 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
*
81757 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAAT
131 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
81822 AATG
196 AATG
*
81826 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
* *
81891 CATAAAGTGTCGATCCATATATAAAACGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
* *
81956 TAATATGTAATTTTTCAATCTAACCGGTACAATAATACCGGTTTTATGAGAGAATATGTCTAAAT
131 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
82021 AATG
196 AATG
*
82025 TGTCGACACTAATATAGTTTGTTTCGATATTTTTTTTCCCAGAATGAATTAAAAACAAGGTGCAC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTT-CCAGAATGAATTAAAAACAAGGTGCAC
82090 CAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
65 CAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
*
82155 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAA
130 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
82220 TAATG
195 TAATG
*
82225 TGTCGACACTAATATATTTTGTGTCGATA
1 TGTCGACACTAATATAGTTTGTGTCGATA
82254 CTAATTTAAA
Statistics
Matches: 1001, Mismatches: 17, Indels: 7
0.98 0.02 0.01
Matches are distributed among these distances:
197 114 0.11
198 359 0.36
199 342 0.34
200 186 0.19
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (199 bp):
TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
AATG
Found at i:83412 original size:18 final size:18
Alignment explanation
Indices: 83389--83456 Score: 55
Period size: 21 Copynumber: 3.4 Consensus size: 18
83379 ATCGGTCGCA
83389 GAAGATGAAGCTGACGAT
1 GAAGATGAAGCTGACGAT
* *
83407 GAAGATGACGATGATGATGAT
1 GAAGATGA--A-GCTGACGAT
*
83428 GATGACGATGAAGCTGGCGAT
1 GA--A-GATGAAGCTGACGAT
83449 GAAGATGA
1 GAAGATGA
83457 TGACGATGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
18 13 0.33
19 1 0.03
20 1 0.03
21 17 0.44
22 1 0.03
23 1 0.03
24 5 0.13
ACGTcount: A:0.37, C:0.09, G:0.35, T:0.19
Consensus pattern (18 bp):
GAAGATGAAGCTGACGAT
Found at i:83413 original size:6 final size:6
Alignment explanation
Indices: 83389--83486 Score: 70
Period size: 6 Copynumber: 16.3 Consensus size: 6
83379 ATCGGTCGCA
* * * * * *
83389 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GATGAT GACGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
* ** * * * * *
83437 GAAGCT GGCGAT GAAGAT GATGAC GATGAT GATGAT GATGAT GAAGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
83485 GA
1 GA
83487 TGATCCAAAC
Statistics
Matches: 74, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 74 1.00
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:83424 original size:3 final size:3
Alignment explanation
Indices: 83404--83490 Score: 84
Period size: 3 Copynumber: 29.0 Consensus size: 3
83394 TGAAGCTGAC
* * * * * ** *
83404 GAT GAA GAT GAC GAT GAT GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
83452 GAT GAT GAC GAT GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
83491 CCAAACAAGT
Statistics
Matches: 65, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.36, C:0.06, G:0.34, T:0.24
Consensus pattern (3 bp):
GAT
Found at i:83439 original size:42 final size:42
Alignment explanation
Indices: 83392--83482 Score: 146
Period size: 42 Copynumber: 2.2 Consensus size: 42
83382 GGTCGCAGAA
*
83392 GATGAAGCTGACGATGAAGATGACGATGATGATGATGATGAC
1 GATGAAGCTGACGATGAAGATGACGACGATGATGATGATGAC
* * *
83434 GATGAAGCTGGCGATGAAGATGATGACGATGATGATGATGAT
1 GATGAAGCTGACGATGAAGATGACGACGATGATGATGATGAC
83476 GATGAAG
1 GATGAAG
83483 ATGATGATCC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.08, G:0.35, T:0.22
Consensus pattern (42 bp):
GATGAAGCTGACGATGAAGATGACGACGATGATGATGATGAC
Found at i:83490 original size:18 final size:18
Alignment explanation
Indices: 83389--83486 Score: 88
Period size: 18 Copynumber: 5.4 Consensus size: 18
83379 ATCGGTCGCA
* *
83389 GAAGATGAAGCTGACGAT
1 GAAGATGAAGATGATGAT
*
83407 GAAGATGACGATGATGAT
1 GAAGATGAAGATGATGAT
* * * *
83425 GATGATGACGATGAAGCT
1 GAAGATGAAGATGATGAT
** *
83443 GGCGATGAAGATGATGAC
1 GAAGATGAAGATGATGAT
* *
83461 GATGATGATGATGATGAT
1 GAAGATGAAGATGATGAT
83479 GAAGATGA
1 GAAGATGA
83487 TGATCCAAAC
Statistics
Matches: 63, Mismatches: 17, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 63 1.00
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.21
Consensus pattern (18 bp):
GAAGATGAAGATGATGAT
Found at i:85264 original size:184 final size:184
Alignment explanation
Indices: 84955--85626 Score: 1263
Period size: 184 Copynumber: 3.7 Consensus size: 184
84945 CTTTCAACAT
** *
84955 ATTATAATAAAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGAGCGAATA
85020 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
85085 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
* *
85139 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCCAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGAGCGAATA
85204 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
*
85269 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
*
85323 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGAGCGAATA
85388 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
85453 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
*
85507 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGAGCGAATA
*
85572 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCATA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATA
85627 CCATTTAAAA
Statistics
Matches: 475, Mismatches: 13, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
184 475 1.00
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (184 bp):
ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGAGCGAATA
GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
Found at i:88215 original size:23 final size:23
Alignment explanation
Indices: 88184--88247 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
88174 ATAGGTAAAC
*
88184 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
88207 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
88230 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
88248 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:88254 original size:23 final size:23
Alignment explanation
Indices: 88184--88256 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
88174 ATAGGTAAAC
* **
88184 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
88207 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
88230 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
88253 ATAT
1 ATAT
88257 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:88443 original size:29 final size:30
Alignment explanation
Indices: 88400--88466 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 30
88390 GTTACGGTAT
* *
88400 ATATTATTATTAAAT-TAAAA-ATTCTAAATA
1 ATATT-TTATAAAATATAAAACAATC-AAATA
88430 ATATTTTATAAAATATAAAACAATCAAATA
1 ATATTTTATAAAATATAAAACAATCAAATA
*
88460 ATTTTTT
1 ATATTTT
88467 GTGCAAATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 8 0.25
30 21 0.66
31 3 0.09
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (30 bp):
ATATTTTATAAAATATAAAACAATCAAATA
Found at i:88672 original size:23 final size:23
Alignment explanation
Indices: 88609--88672 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
88599 AATAGGTAAC
* *
88609 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTATCCCTT
**
88632 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCCCTT
88655 ATATAATGTAATAGGTAT
1 ATATAATGTAATAGGTAT
88673 TTATCTCGCA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.36, C:0.06, G:0.19, T:0.39
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCCCTT
Found at i:88898 original size:18 final size:18
Alignment explanation
Indices: 88877--88913 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
88867 GTAATTGGAG
88877 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
88895 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
88913 T
1 T
88914 ATATATTTCG
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:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:88921 original size:24 final size:24
Alignment explanation
Indices: 88869--88915 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
88859 TTTCATATGT
* *
88869 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
88893 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
88916 ATATTTCGGC
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:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:92113 original size:13 final size:13
Alignment explanation
Indices: 92095--92122 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
92085 ATAAAATTTT
92095 AAAAAATTATTAA
1 AAAAAATTATTAA
92108 AAAAAATTATTAA
1 AAAAAATTATTAA
92121 AA
1 AA
92123 TATATGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
AAAAAATTATTAA
Found at i:92132 original size:23 final size:23
Alignment explanation
Indices: 92087--92132 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
92077 TTAAATTTAT
*
92087 AAAATTTTAAAAAATTATTAAAA
1 AAAATTTTAAAAAATTATGAAAA
*
92110 AAAATTATTAAAATA-TATGAAAA
1 AAAATT-TTAAAAAATTATGAAAA
92133 TTTTAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (23 bp):
AAAATTTTAAAAAATTATGAAAA
Found at i:92615 original size:17 final size:17
Alignment explanation
Indices: 92593--92625 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
92583 AAGATTTAAT
92593 GGTTAACATTAATAAAC
1 GGTTAACATTAATAAAC
92610 GGTTAACATTAATAAA
1 GGTTAACATTAATAAA
92626 TTATAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.09, G:0.12, T:0.30
Consensus pattern (17 bp):
GGTTAACATTAATAAAC
Found at i:92983 original size:27 final size:27
Alignment explanation
Indices: 92953--93031 Score: 73
Period size: 27 Copynumber: 3.1 Consensus size: 27
92943 TTATAAAATA
92953 TAAATATACATGTAAGATTTTAAACTG
1 TAAATATACATGTAAGATTTTAAACTG
* * *
92980 TAAA-A-AGA--TAA-A-TAT-ACCTCG
1 TAAATATACATGTAAGATTTTAAACT-G
93001 TAAATATACATGTAAGATTTTAAACTG
1 TAAATATACATGTAAGATTTTAAACTG
93028 TAAA
1 TAAA
93032 AAGATAAAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 16
0.63 0.10 0.27
Matches are distributed among these distances:
20 3 0.08
21 7 0.18
22 2 0.05
23 5 0.13
25 5 0.13
26 2 0.05
27 11 0.29
28 3 0.08
ACGTcount: A:0.48, C:0.09, G:0.10, T:0.33
Consensus pattern (27 bp):
TAAATATACATGTAAGATTTTAAACTG
Found at i:93011 original size:48 final size:47
Alignment explanation
Indices: 92953--93043 Score: 173
Period size: 48 Copynumber: 1.9 Consensus size: 47
92943 TTATAAAATA
92953 TAAATATACATGTAAGATTTTAAACTGTAAAAAGATAAATATACCTCG
1 TAAATATACATGTAAGATTTTAAACTGTAAAAAGATAAA-ATACCTCG
93001 TAAATATACATGTAAGATTTTAAACTGTAAAAAGATAAAATAC
1 TAAATATACATGTAAGATTTTAAACTGTAAAAAGATAAAATAC
93044 ATTTACAAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
47 4 0.09
48 39 0.91
ACGTcount: A:0.51, C:0.09, G:0.10, T:0.31
Consensus pattern (47 bp):
TAAATATACATGTAAGATTTTAAACTGTAAAAAGATAAAATACCTCG
Found at i:93777 original size:3 final size:3
Alignment explanation
Indices: 93762--93792 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
93752 ATTCCACATG
*
93762 ATA ATA TTA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
93793 AAAGGAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:96906 original size:16 final size:16
Alignment explanation
Indices: 96885--96918 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
96875 TGATTAAGCG
96885 CTGAATGATTCAAATA
1 CTGAATGATTCAAATA
*
96901 CTGAATGATTCAGATA
1 CTGAATGATTCAAATA
96917 CT
1 CT
96919 CTGTATGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (16 bp):
CTGAATGATTCAAATA
Found at i:97666 original size:16 final size:17
Alignment explanation
Indices: 97635--97669 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
97625 TACTATTCAT
*
97635 TTCCCTCCTCTTTTTTC
1 TTCCCTCCTCTCTTTTC
97652 TTCCCT-CTCTCTTTTC
1 TTCCCTCCTCTCTTTTC
97668 TT
1 TT
97670 TCACTTTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (17 bp):
TTCCCTCCTCTCTTTTC
Found at i:103396 original size:2 final size:2
Alignment explanation
Indices: 103389--103414 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
103379 CTCATTTTAT
103389 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
103415 ATTATACATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:103420 original size:10 final size:9
Alignment explanation
Indices: 103386--103446 Score: 56
Period size: 10 Copynumber: 6.7 Consensus size: 9
103376 GTTCTCATTT
103386 TATTATATA
1 TATTATATA
103395 TA-TATATA
1 TATTATATA
103403 TATATATATA
1 TAT-TATATA
*
103413 TAATTATACA
1 T-ATTATATA
103423 TATT-TAT-
1 TATTATATA
103430 TATTATTATTA
1 TATTA-TA-TA
103441 TATTAT
1 TATTAT
103447 TACAAATATT
Statistics
Matches: 43, Mismatches: 2, Indels: 13
0.74 0.03 0.22
Matches are distributed among these distances:
7 4 0.09
8 10 0.23
9 7 0.16
10 15 0.35
11 7 0.16
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (9 bp):
TATTATATA
Found at i:105306 original size:32 final size:31
Alignment explanation
Indices: 105269--105343 Score: 80
Period size: 30 Copynumber: 2.4 Consensus size: 31
105259 GAGGCCACGA
* * *
105269 GGCCTACCTAAGAACATATCTTAGGGCTGCGG
1 GGCCTACCTAAGAACA-ATCTCAGGGCCGCAG
* *
105301 GGCCTACCCAA-AATAATCTCAGGGCCGCAG
1 GGCCTACCTAAGAACAATCTCAGGGCCGCAG
*
105331 AGCCTACCTAAGA
1 GGCCTACCTAAGA
105344 GTCACGATAG
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
30 21 0.60
31 4 0.11
32 10 0.29
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.17
Consensus pattern (31 bp):
GGCCTACCTAAGAACAATCTCAGGGCCGCAG
Found at i:108220 original size:10 final size:10
Alignment explanation
Indices: 108205--108236 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
108195 AATTAGGGAC
*
108205 TAACTTGAAT
1 TAACTTAAAT
108215 TAACTTAAAT
1 TAACTTAAAT
108225 TAACTTAAAT
1 TAACTTAAAT
108235 TA
1 TA
108237 TCATGGCTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.41
Consensus pattern (10 bp):
TAACTTAAAT
Found at i:111516 original size:21 final size:21
Alignment explanation
Indices: 111486--111715 Score: 224
Period size: 21 Copynumber: 11.0 Consensus size: 21
111476 GATTTACATA
*
111486 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
111507 TTCGCGTTGCGATAATCGAAG
1 TTCGCGTTGCGATAGTCCAAG
111528 TTCGCGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
111549 TTCGCGTTGCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
*
111572 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
111591 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
*
111614 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
*
111633 TTCGCGTTGCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
*
111656 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
111675 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
111698 TT--CGTTGCGATAGTCCAA
1 TTCGCGTTGCGATAGTCCAA
111716 AATCGCAACG
Statistics
Matches: 173, Mismatches: 22, Indels: 30
0.77 0.10 0.13
Matches are distributed among these distances:
19 33 0.19
21 105 0.61
23 35 0.20
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.34
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:111538 original size:42 final size:41
Alignment explanation
Indices: 111492--111712 Score: 327
Period size: 42 Copynumber: 5.3 Consensus size: 41
111482 CATATTCGCA
* * *
111492 TTGCGATAGTCCAAGTTCGCGTTGCGA-TAATCGAAGTTCGCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTATTCCAAGTT--CG
*
111534 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGA-TTATTCCAAGTTCG
*
111576 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGA-TTATTCCAAGTTCG
111618 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGA-TTATTCCAAGTTCG
*
111660 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGA-TTATTCCAAGTTCG
111702 TTGCGATAGTC
1 TTGCGATAGTC
111713 CAAAATCGCA
Statistics
Matches: 171, Mismatches: 6, Indels: 4
0.94 0.03 0.02
Matches are distributed among these distances:
42 162 0.95
44 9 0.05
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.34
Consensus pattern (41 bp):
TTGCGATAGTCGAAGTTCGCGTTGCGATTATTCCAAGTTCG
Found at i:112320 original size:6 final size:6
Alignment explanation
Indices: 112311--112336 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
112301 CCGTCTCGTC
112311 TCGTGG TCGTGG TCGTGG TCGTGG TC
1 TCGTGG TCGTGG TCGTGG TCGTGG TC
112337 ATACGTGTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.19, G:0.46, T:0.35
Consensus pattern (6 bp):
TCGTGG
Found at i:112448 original size:19 final size:19
Alignment explanation
Indices: 112424--112543 Score: 69
Period size: 19 Copynumber: 5.9 Consensus size: 19
112414 TCGTTGCGAT
*
112424 TTTGGACTATCGCAACGAA
1 TTTGGAATATCGCAACGAA
112443 TTTGGAATAAATCGCAACGCGAA
1 TTTGGAAT--ATCGCAA--CGAA
* * * *
112466 CTTGGACTATCTCAAGGAA
1 TTTGGAATATCGCAACGAA
*
112485 TTTGGAATAAATCCCAACGCGAA
1 TTTGGAAT--ATCGCAA--CGAA
* * * *
112508 CTTCGACTATCGCAATGAA
1 TTTGGAATATCGCAACGAA
*
112527 TTTGGAAAATCGCAACG
1 TTTGGAATATCGCAACG
112544 CGAACTTCGC
Statistics
Matches: 74, Mismatches: 19, Indels: 16
0.68 0.17 0.15
Matches are distributed among these distances:
19 31 0.42
21 25 0.34
23 18 0.24
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.24
Consensus pattern (19 bp):
TTTGGAATATCGCAACGAA
Found at i:112458 original size:21 final size:21
Alignment explanation
Indices: 112432--112503 Score: 67
Period size: 21 Copynumber: 3.4 Consensus size: 21
112422 ATTTTGGACT
112432 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
* *
112453 ATCGCAACGCGAACTTGGACT--
1 ATCGCAA--CGAATTTGGAATAA
* *
112474 ATCTCAAGGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
*
112495 ATCCCAACG
1 ATCGCAACG
112504 CGAACTTCGA
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
19 9 0.23
21 20 0.51
23 10 0.26
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (21 bp):
ATCGCAACGAATTTGGAATAA
Found at i:112548 original size:40 final size:42
Alignment explanation
Indices: 112428--112564 Score: 206
Period size: 42 Copynumber: 3.3 Consensus size: 42
112418 TGCGATTTTG
* *
112428 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTG
1 GACTATCGCAATGAATTTGGAATAAATCGCAACGCGAACTTC
* * *
112470 GACTATCTCAAGGAATTTGGAATAAATCCCAACGCGAACTTC
1 GACTATCGCAATGAATTTGGAATAAATCGCAACGCGAACTTC
112512 GACTATCGCAATGAATTTGG-A-AAATCGCAACGCGAACTTC
1 GACTATCGCAATGAATTTGGAATAAATCGCAACGCGAACTTC
*
112552 GCCTATCGCAATG
1 GACTATCGCAATG
112565 CGAATATGTA
Statistics
Matches: 87, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
40 30 0.34
41 1 0.01
42 56 0.64
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (42 bp):
GACTATCGCAATGAATTTGGAATAAATCGCAACGCGAACTTC
Found at i:112607 original size:20 final size:20
Alignment explanation
Indices: 112556--112599 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
112546 AACTTCGCCT
112556 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
112576 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
112596 ATCG
1 ATCG
112600 TATTGCGATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (20 bp):
ATCGCAATGCGAATATGTAA
Found at i:112631 original size:21 final size:21
Alignment explanation
Indices: 112602--112647 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
112592 GTAAATCGTA
*
112602 TTGCGATAGTCCAAGTTCGCG
1 TTGCAATAGTCCAAGTTCGCG
*
112623 TTGCAATAGTCGAAGTTCGCG
1 TTGCAATAGTCCAAGTTCGCG
112644 TTGC
1 TTGC
112648 GAATCTGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGCAATAGTCCAAGTTCGCG
Found at i:116074 original size:5 final size:5
Alignment explanation
Indices: 116066--116109 Score: 88
Period size: 5 Copynumber: 8.8 Consensus size: 5
116056 AACTTTGGGA
116066 GGACG GGACG GGACG GGACG GGACG GGACG GGACG GGACG GGAC
1 GGACG GGACG GGACG GGACG GGACG GGACG GGACG GGACG GGAC
116110 AGAACAGCCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 39 1.00
ACGTcount: A:0.20, C:0.20, G:0.59, T:0.00
Consensus pattern (5 bp):
GGACG
Found at i:117769 original size:2 final size:2
Alignment explanation
Indices: 117764--117789 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
117754 TATATATATA
117764 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
117790 GGGATATGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:119986 original size:41 final size:41
Alignment explanation
Indices: 119941--120087 Score: 126
Period size: 41 Copynumber: 3.6 Consensus size: 41
119931 CATGTATAGT
119941 GGCGTTTTT-TGACAAACGCCGCTAAAGAGTAGTACTGTAAC
1 GGCGTTTTTAT-ACAAACGCCGCTAAAGAGTAGTACTGTAAC
* * *
119982 GGCGTTTTTATAAAAATGCCGC-AATAGGGT--TA-TGTATAGC
1 GGCGTTTTTATACAAACGCCGCTAA-AGAGTAGTACTGTA-A-C
* * * * *
120022 GGCAATTTTT-TGACAAACGACGCTAAAGAGTAGTCCTTTAGC
1 GGC-GTTTTTAT-ACAAACGCCGCTAAAGAGTAGTACTGTAAC
120064 GGCGTTTTTATACAAACGCCGCTA
1 GGCGTTTTTATACAAACGCCGCTA
120088 TAGACTTGTA
Statistics
Matches: 82, Mismatches: 13, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
38 4 0.05
39 3 0.04
40 7 0.09
41 56 0.68
42 8 0.10
43 1 0.01
44 3 0.04
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.29
Consensus pattern (41 bp):
GGCGTTTTTATACAAACGCCGCTAAAGAGTAGTACTGTAAC
Found at i:119998 original size:82 final size:83
Alignment explanation
Indices: 119904--120090 Score: 256
Period size: 82 Copynumber: 2.3 Consensus size: 83
119894 CTTTAGCAGT
* * * *
119904 GTTTTTAT-AAAATCGCCGCAATATGGTCATGTATAGTGGC-GTTTTTTGACAAACGCCGCTAAA
1 GTTTTTATAAAAATCGCCGCAATAGGGTCATGTATAGCGGCAATTTTTTGACAAACGACGCTAAA
119967 GAGTAGTACTGTAACGGC
66 GAGTAGTACTGTAACGGC
*
119985 GTTTTTATAAAAAT-GCCGCAATAGGGTTATGTATAGCGGCAATTTTTTGACAAACGACGCTAAA
1 GTTTTTATAAAAATCGCCGCAATAGGGTCATGTATAGCGGCAATTTTTTGACAAACGACGCTAAA
* * *
120049 GAGTAGTCCTTTAGCGGC
66 GAGTAGTACTGTAACGGC
* *
120067 GTTTTTATACAAA-CGCCGCTATAG
1 GTTTTTATAAAAATCGCCGCAATAG
120091 ACTTGTATTT
Statistics
Matches: 93, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
81 31 0.33
82 62 0.67
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.31
Consensus pattern (83 bp):
GTTTTTATAAAAATCGCCGCAATAGGGTCATGTATAGCGGCAATTTTTTGACAAACGACGCTAAA
GAGTAGTACTGTAACGGC
Found at i:123634 original size:42 final size:42
Alignment explanation
Indices: 123520--123951 Score: 381
Period size: 42 Copynumber: 10.1 Consensus size: 42
123510 GTAATTAGCA
* * * *
123520 GCGTTTGTTCCAAAAATGCCACTATAGACCTAGATCTTTTGCG
1 GCGTTTGTTCCAAAAACGCCGCTATAGATCT-GACCTTTTGCG
* * * *
123563 GCGTTTGTACCAAAAAATGCCGTTATAGATCTGACCTTTAGCG
1 GCGTTTGTTCC-AAAAACGCCGCTATAGATCTGACCTTTTGCG
*
123606 GCGTTTGTTCCAAAAACGCCGCTATAGATCTAACCTTTTGCG
1 GCGTTTGTTCCAAAAACGCCGCTATAGATCTGACCTTTTGCG
* * * * * *
123648 GCGTTTGTTCAAAAAATGCAGCTATATATCTTGACATATTGCG
1 GCGTTTGTTCCAAAAACGCCGCTATAGATC-TGACCTTTTGCG
** * *
123691 GCGTTT-TTTGAACAAACGCCGCTAAATG-TCTAACCTTTTGCG
1 GCGTTTGTTCCAA-AAACGCCGCTATA-GATCTGACCTTTTGCG
* * * *
123733 GCGTTTGTTCCAAAAACGCCGATATATATCTTGACCTATTGCA
1 GCGTTTGTTCCAAAAACGCCGCTATAGATC-TGACCTTTTGCG
** * *
123776 GCGTTT-TTTGAACAAACGTCGCTATATATCTGACCTTTTGCG
1 GCGTTTGTTCCAA-AAACGCCGCTATAGATCTGACCTTTTGCG
* * * *
123818 GCGTTTGTTCCAAAAATGCCGCTATATATCTTGACCTATTGCA
1 GCGTTTGTTCCAAAAACGCCGCTATAGATC-TGACCTTTTGCG
** * *
123861 GCGTTT-TTTGAACAAACGCCGTTATAGATCTCGACATTTTGCG
1 GCGTTTGTTCCAA-AAACGCCGCTATAGATCT-GACCTTTTGCG
* *
123904 GCGTTTGTT-CAAAAACGCCG-TAATAGATATTGACCTATTGCG
1 GCGTTTGTTCCAAAAACGCCGCT-ATAGAT-CTGACCTTTTGCG
123946 GCGTTT
1 GCGTTT
123952 TTTGTTCTCA
Statistics
Matches: 315, Mismatches: 59, Indels: 31
0.78 0.15 0.08
Matches are distributed among these distances:
41 1 0.00
42 154 0.49
43 141 0.45
44 19 0.06
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (42 bp):
GCGTTTGTTCCAAAAACGCCGCTATAGATCTGACCTTTTGCG
Found at i:123692 original size:85 final size:85
Alignment explanation
Indices: 123541--123955 Score: 491
Period size: 85 Copynumber: 4.9 Consensus size: 85
123531 AAAAATGCCA
* * * * *
123541 CTATAGACCTAGATCTTTTGCGGCGTTTGTACCAAAAAATGCCGTTATAGATC-TGACCT-TTAG
1 CTATAGATCTA-ACCTTTTGCGGCGTTTGT-TCAAAAAATGCCGCTATATATCTTGACCTATT-G
* **
123604 CGGCGTTTGTTCCAA-AAACGCCG
63 CAGCGTTT-TTTGAACAAACGCCG
* * *
123627 CTATAGATCTAACCTTTTGCGGCGTTTGTTCAAAAAATGCAGCTATATATCTTGACATATTGCGG
1 CTATAGATCTAACCTTTTGCGGCGTTTGTTCAAAAAATGCCGCTATATATCTTGACCTATTGCAG
123692 CGTTTTTTGAACAAACGCCG
66 CGTTTTTTGAACAAACGCCG
* * * *
123712 CTAAATG-TCTAACCTTTTGCGGCGTTTGTTCCAAAAACGCCGATATATATCTTGACCTATTGCA
1 CTATA-GATCTAACCTTTTGCGGCGTTTGTTCAAAAAATGCCGCTATATATCTTGACCTATTGCA
*
123776 GCGTTTTTTGAACAAACGTCG
65 GCGTTTTTTGAACAAACGCCG
* * *
123797 CTATATATCTGACCTTTTGCGGCGTTTGTTCCAAAAATGCCGCTATATATCTTGACCTATTGCAG
1 CTATAGATCTAACCTTTTGCGGCGTTTGTTCAAAAAATGCCGCTATATATCTTGACCTATTGCAG
123862 CGTTTTTTGAACAAACGCCG
66 CGTTTTTTGAACAAACGCCG
* * * * * *
123882 TTATAGATCTCGACATTTTGCGGCGTTTGTTC-AAAAACGCCG-TAATAGATATTGACCTATTGC
1 CTATAGATCT-AACCTTTTGCGGCGTTTGTTCAAAAAATGCCGCT-ATATATCTTGACCTATTGC
*
123945 GGCGTTTTTTG
64 AGCGTTTTTTG
123956 TTCTCAAACG
Statistics
Matches: 292, Mismatches: 30, Indels: 15
0.87 0.09 0.04
Matches are distributed among these distances:
84 23 0.08
85 236 0.81
86 33 0.11
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.34
Consensus pattern (85 bp):
CTATAGATCTAACCTTTTGCGGCGTTTGTTCAAAAAATGCCGCTATATATCTTGACCTATTGCAG
CGTTTTTTGAACAAACGCCG
Found at i:127028 original size:2 final size:2
Alignment explanation
Indices: 127021--127052 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
127011 TTTCTTCCCG
127021 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
127053 GGTGATACTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:140724 original size:16 final size:16
Alignment explanation
Indices: 140700--140730 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
140690 AAAAGATACA
*
140700 TATCTTTTTAAAACAG
1 TATCATTTTAAAACAG
140716 TATCATTTTAAAACA
1 TATCATTTTAAAACA
140731 TATTTACCCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.13, G:0.03, T:0.42
Consensus pattern (16 bp):
TATCATTTTAAAACAG
Found at i:140804 original size:18 final size:18
Alignment explanation
Indices: 140781--140817 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
140771 GAAAGGTTTT
140781 ACCCTTGCACATAGCAAA
1 ACCCTTGCACATAGCAAA
140799 ACCCTTGCACATAGCAAA
1 ACCCTTGCACATAGCAAA
140817 A
1 A
140818 GAGCATGGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.32, G:0.11, T:0.16
Consensus pattern (18 bp):
ACCCTTGCACATAGCAAA
Found at i:140860 original size:43 final size:43
Alignment explanation
Indices: 140799--141040 Score: 306
Period size: 43 Copynumber: 5.6 Consensus size: 43
140789 ACATAGCAAA
* * * * *
140799 ACCCTTGCACATAGCAAAAGAGCAT-GGGAAACTATAAGGTCTT
1 ACCCTTGCACACAACAAAAGAACCTGGGGAAACTGTAAGG-CTT
* *
140842 ACCCTTGCACACAACAAAAGAACCTAGGGAAACTGTAAGGCTC
1 ACCCTTGCACACAACAAAAGAACCTGGGGAAACTGTAAGGCTT
* * *
140885 ACCATTGAACACAACAAACGAACCTGGGGGAAACTGTAAGGCTT
1 ACCCTTGCACACAACAAAAGAACCT-GGGGAAACTGTAAGGCTT
* *
140929 ACCCTTGCACAAAACAAAGGAACCTGGGGAAACTGTAAGGCTT
1 ACCCTTGCACACAACAAAAGAACCTGGGGAAACTGTAAGGCTT
* * *
140972 ACCCTTGCAAACAGCAAAGGAACCTGGGGAAACTGTAAGGCTT
1 ACCCTTGCACACAACAAAAGAACCTGGGGAAACTGTAAGGCTT
* *
141015 ACCCTTGCACACAGCAAAGGAACCTG
1 ACCCTTGCACACAACAAAAGAACCTG
141041 CGGTAACGGT
Statistics
Matches: 178, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
43 128 0.72
44 50 0.28
ACGTcount: A:0.37, C:0.25, G:0.22, T:0.16
Consensus pattern (43 bp):
ACCCTTGCACACAACAAAAGAACCTGGGGAAACTGTAAGGCTT
Found at i:140938 original size:87 final size:86
Alignment explanation
Indices: 140824--141039 Score: 317
Period size: 87 Copynumber: 2.5 Consensus size: 86
140814 AAAAGAGCAT
* *
140824 GGGAAACTATAAGGTCTTACCCTTGCACACAACAAAAGAACCTAGGGAAACTGTAAGGCTCACCA
1 GGGAAACTGTAAGG-CTTACCCTTGCACACAACAAAGGAACCTAGGGAAACTGTAAGGCTCACCA
140889 TTG-AACACAACAAACGAACCTGG
65 TTGCAA-ACAACAAACGAACCT-G
* * * *
140912 GGGAAACTGTAAGGCTTACCCTTGCACAAAACAAAGGAACCTGGGGAAACTGTAAGGCTTACCCT
1 GGGAAACTGTAAGGCTTACCCTTGCACACAACAAAGGAACCTAGGGAAACTGTAAGGCTCACCAT
* *
140977 TGCAAACAGCAAAGGAACCTG
66 TGCAAACAACAAACGAACCTG
*
140998 GGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACCT
1 GGGAAACTGTAAGGCTTACCCTTGCACACAACAAAGGAACCT
141040 GCGGTAACGG
Statistics
Matches: 117, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
86 41 0.35
87 61 0.52
88 15 0.13
ACGTcount: A:0.37, C:0.25, G:0.22, T:0.16
Consensus pattern (86 bp):
GGGAAACTGTAAGGCTTACCCTTGCACACAACAAAGGAACCTAGGGAAACTGTAAGGCTCACCAT
TGCAAACAACAAACGAACCTG
Found at i:144981 original size:18 final size:18
Alignment explanation
Indices: 144958--145003 Score: 92
Period size: 18 Copynumber: 2.6 Consensus size: 18
144948 CAGTGAATGG
144958 GTCGGGTCAATGGGTCGA
1 GTCGGGTCAATGGGTCGA
144976 GTCGGGTCAATGGGTCGA
1 GTCGGGTCAATGGGTCGA
144994 GTCGGGTCAA
1 GTCGGGTCAA
145004 ATCGGGTCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.17, C:0.17, G:0.43, T:0.22
Consensus pattern (18 bp):
GTCGGGTCAATGGGTCGA
Found at i:145012 original size:10 final size:10
Alignment explanation
Indices: 144959--145025 Score: 52
Period size: 10 Copynumber: 7.0 Consensus size: 10
144949 AGTGAATGGG
144959 TCGGGTC-AA
1 TCGGGTCAAA
* *
144968 T-GGGTCGAG
1 TCGGGTCAAA
144977 TCGGGTC-AA
1 TCGGGTCAAA
* *
144986 T-GGGTCGAG
1 TCGGGTCAAA
144995 TCGGGTCAAA
1 TCGGGTCAAA
145005 TCGGGTCAAA
1 TCGGGTCAAA
*
145015 ACTGGGTCAAA
1 TC-GGGTCAAA
145026 CTATCCCAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
8 10 0.21
9 7 0.15
10 22 0.47
11 8 0.17
ACGTcount: A:0.24, C:0.18, G:0.37, T:0.21
Consensus pattern (10 bp):
TCGGGTCAAA
Found at i:147097 original size:85 final size:87
Alignment explanation
Indices: 146975--147143 Score: 227
Period size: 85 Copynumber: 2.0 Consensus size: 87
146965 AAAAGAGCCT
* * *
146975 GGGAAACTATAAGGTCTTGCCCTTGCACACAACAAAGGAACCTAGGA-AAACTGTAAAGCTCACC
1 GGGAAACTATAAGGACTTACCCTTGCACACAACAAAGGAACCT-GGAGAAACTATAAAGCTCACC
147039 CTTGC-CACAACAAAGGAACATG
65 CTTGCACACAACAAAGGAACATG
* ** * *
147061 GGGAAACTGTAA-GACTTACCCTTGCACACAGTAAAGGAACCTGGAGAAACTATAAGGCTTACCC
1 GGGAAACTATAAGGACTTACCCTTGCACACAACAAAGGAACCTGGAGAAACTATAAAGCTCACCC
*
147125 TTGCACACAGCAAAGGAAC
66 TTGCACACAACAAAGGAAC
147144 CTGCGGTAAC
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
84 3 0.04
85 45 0.62
86 24 0.33
ACGTcount: A:0.38, C:0.25, G:0.21, T:0.17
Consensus pattern (87 bp):
GGGAAACTATAAGGACTTACCCTTGCACACAACAAAGGAACCTGGAGAAACTATAAAGCTCACCC
TTGCACACAACAAAGGAACATG
Found at i:147146 original size:43 final size:43
Alignment explanation
Indices: 146941--147146 Score: 238
Period size: 43 Copynumber: 4.8 Consensus size: 43
146931 GCAAAAACGG
* * *
146941 TAAGGTCTTACCCTTGCACATAGCAAAAGAGCCTGG-GAAACTA
1 TAAGG-CTTACCCTTGCACACAGCAAAGGAACCTGGAGAAACTA
* * *
146984 TAAGGTCTTGCCCTTGCACACAACAAAGGAACCTAGGA-AAACTG
1 TAAGG-CTTACCCTTGCACACAGCAAAGGAACCT-GGAGAAACTA
* * * * * *
147028 TAAAGCTCACCCTTGC-CACAACAAAGGAACATGGGGAAACTG
1 TAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGAGAAACTA
* *
147070 TAAGACTTACCCTTGCACACAGTAAAGGAACCTGGAGAAACTA
1 TAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGAGAAACTA
147113 TAAGGCTTACCCTTGCACACAGCAAAGGAACCTG
1 TAAGGCTTACCCTTGCACACAGCAAAGGAACCTG
147147 CGGTAACGAC
Statistics
Matches: 138, Mismatches: 21, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
41 2 0.01
42 34 0.25
43 91 0.66
44 11 0.08
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.18
Consensus pattern (43 bp):
TAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGAGAAACTA
Found at i:149905 original size:24 final size:23
Alignment explanation
Indices: 149866--149912 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 23
149856 TTAACTTTTT
149866 CGGTCAAACTCAACAGTCAACGG
1 CGGTCAAACTCAACAGTCAACGG
*
149889 CGGTCAACAGTCAACAGTCAACGG
1 CGGTCAA-ACTCAACAGTCAACGG
149913 TCAACAGGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.34, C:0.30, G:0.23, T:0.13
Consensus pattern (23 bp):
CGGTCAAACTCAACAGTCAACGG
Found at i:151173 original size:14 final size:14
Alignment explanation
Indices: 151139--151179 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
151129 GTGAATGGGT
*
151139 CGGGTTGGGTC-AA
1 CGGGTCGGGTCAAA
*
151152 CGGATCGGGTCAAA
1 CGGGTCGGGTCAAA
151166 CGGGTCGGGTCAAA
1 CGGGTCGGGTCAAA
151180 ACTGTGTCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
13 9 0.38
14 15 0.62
ACGTcount: A:0.22, C:0.20, G:0.41, T:0.17
Consensus pattern (14 bp):
CGGGTCGGGTCAAA
Found at i:151330 original size:43 final size:43
Alignment explanation
Indices: 151261--151509 Score: 286
Period size: 43 Copynumber: 5.8 Consensus size: 43
151251 TAGTGCTACG
** * * * *
151261 GTAAGGTCTTACCCTTGTGCATAGCAAAAGAGCCT-GGGAAACT
1 GTAAGG-CTTACCCTTGCACACAACAAAGGAACCTAGGGAAACT
* ** * *
151304 ATAAGGTCTTATTCTTGCACACAGCAAAGGAACCTAGGTAAACT
1 GTAAGG-CTTACCCTTGCACACAACAAAGGAACCTAGGGAAACT
* *
151348 GTAACGCTCACCCTTGCACACAACAAAGGAACCT-GGGAAACT
1 GTAAGGCTTACCCTTGCACACAACAAAGGAACCTAGGGAAACT
* *
151390 GTAAGGCTTACCCTTGCACACATCAAAGGAACCTGGGGAAACT
1 GTAAGGCTTACCCTTGCACACAACAAAGGAACCTAGGGAAACT
* * *
151433 GTAAGGCTTACCCTTGCACACAACAAAGGAACATATGGAAATT
1 GTAAGGCTTACCCTTGCACACAACAAAGGAACCTAGGGAAACT
* *
151476 GTAAGGCTTACCCTTGCACACATCAAAAGAACCT
1 GTAAGGCTTACCCTTGCACACAACAAAGGAACCT
151510 GCGGTAACGG
Statistics
Matches: 177, Mismatches: 27, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
42 38 0.21
43 128 0.72
44 11 0.06
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.20
Consensus pattern (43 bp):
GTAAGGCTTACCCTTGCACACAACAAAGGAACCTAGGGAAACT
Found at i:151432 original size:85 final size:85
Alignment explanation
Indices: 151293--151510 Score: 310
Period size: 85 Copynumber: 2.5 Consensus size: 85
151283 AGCAAAAGAG
* ** * * *
151293 CCTGGGAAACTATAAGGTCTTATTCTTGCACACAGCAAAGGAACCTAGGTAAACTGTAACGCTCA
1 CCTGGGAAACTGTAAGG-CTTACCCTTGCACACATCAAAGGAACCTGGGGAAACTGTAACGCTCA
151358 CCCTTGCACACAACAAAGGAA
65 CCCTTGCACACAACAAAGGAA
* *
151379 CCTGGGAAACTGTAAGGCTTACCCTTGCACACATCAAAGGAACCTGGGGAAACTGTAAGGCTTAC
1 CCTGGGAAACTGTAAGGCTTACCCTTGCACACATCAAAGGAACCTGGGGAAACTGTAACGCTCAC
151444 CCTTGCACACAACAAAGGAA
66 CCTTGCACACAACAAAGGAA
* * * *
151464 CATATGGAAATTGTAAGGCTTACCCTTGCACACATCAAAAGAACCTG
1 CCT-GGGAAACTGTAAGGCTTACCCTTGCACACATCAAAGGAACCTG
151511 CGGTAACGGT
Statistics
Matches: 119, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
85 63 0.53
86 56 0.47
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (85 bp):
CCTGGGAAACTGTAAGGCTTACCCTTGCACACATCAAAGGAACCTGGGGAAACTGTAACGCTCAC
CCTTGCACACAACAAAGGAA
Found at i:151490 original size:128 final size:129
Alignment explanation
Indices: 151261--151510 Score: 317
Period size: 128 Copynumber: 1.9 Consensus size: 129
151251 TAGTGCTACG
** * * **
151261 GTAAGGTCTTACCCTTGTGCATAGCAAAAGAGCCTGGGAAACTATAAGGTCTTATTCTTGCACAC
1 GTAAGGTCTTACCCTTGCACACAGCAAAAGAACCTGGGAAACTATAAGGTCTTACCCTTGCACAC
* * *
151326 AGCAAAGGAACCTAGGTAAACTGTAACGCTCACCCTTGCACACAACAAAGGAACCTGGGAAACT
66 AACAAAGGAACATAGGTAAACTGTAACGCTCACCCTTGCACACAACAAAAGAACCTGGGAAACT
* * *
151390 GTAAGG-CTTACCCTTGCACACATCAAAGGAACCTGGGGAAACTGTAAGG-CTTACCCTTGCACA
1 GTAAGGTCTTACCCTTGCACACAGCAAAAGAACCT-GGGAAACTATAAGGTCTTACCCTTGCACA
* * * *
151453 CAACAAAGGAACATATGG-AAATTGTAAGGCTTACCCTTGCACACATCAAAAGAACCTG
65 CAACAAAGGAACATA-GGTAAACTGTAACGCTCACCCTTGCACACAACAAAAGAACCTG
151511 CGGTAACGGT
Statistics
Matches: 103, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
128 82 0.80
129 21 0.20
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.20
Consensus pattern (129 bp):
GTAAGGTCTTACCCTTGCACACAGCAAAAGAACCTGGGAAACTATAAGGTCTTACCCTTGCACAC
AACAAAGGAACATAGGTAAACTGTAACGCTCACCCTTGCACACAACAAAAGAACCTGGGAAACT
Found at i:161208 original size:3 final size:3
Alignment explanation
Indices: 161200--161255 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
161190 AAATTCGGAA
161200 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
161248 AAT AAT AA
1 AAT AAT AA
161256 AACTTCTTAC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:162981 original size:15 final size:15
Alignment explanation
Indices: 162961--162992 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
162951 TTTGATAACA
*
162961 TTTCTATCCTTTCCT
1 TTTCTATCATTTCCT
162976 TTTCTATCATTTCCT
1 TTTCTATCATTTCCT
162991 TT
1 TT
162993 CTTCTTTCAT
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:0.09, C:0.28, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTCTATCATTTCCT
Found at i:181377 original size:14 final size:14
Alignment explanation
Indices: 181349--181388 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
181339 TTTTTTTTGT
181349 GTTTGTGTT-GTTC
1 GTTTGTGTTCGTTC
*
181362 GTTTATGTTCGTTC
1 GTTTGTGTTCGTTC
*
181376 GTTCGTGTTCGTT
1 GTTTGTGTTCGTT
181389 TATGTTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
13 8 0.35
14 15 0.65
ACGTcount: A:0.03, C:0.12, G:0.28, T:0.57
Consensus pattern (14 bp):
GTTTGTGTTCGTTC
Found at i:181486 original size:16 final size:16
Alignment explanation
Indices: 181465--181497 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
181455 AAAAAAAATT
181465 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
181481 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
181497 T
1 T
181498 TTATTTATTA
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:0.06, C:0.12, G:0.24, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:181697 original size:12 final size:12
Alignment explanation
Indices: 181680--181704 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
181670 TTTAATCAAA
181680 TTTGAGTATTAC
1 TTTGAGTATTAC
181692 TTTGAGTATTAC
1 TTTGAGTATTAC
181704 T
1 T
181705 AAATTCAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.16, T:0.52
Consensus pattern (12 bp):
TTTGAGTATTAC
Found at i:182317 original size:72 final size:72
Alignment explanation
Indices: 182228--182367 Score: 183
Period size: 72 Copynumber: 1.9 Consensus size: 72
182218 CTCGAAATGC
* * * **
182228 TCGACTCATACTCGTTAAAAAATTTTACTGCT-TGACTCGACTCGTTGCTTGTTAAGCTCGTTAA
1 TCGACTCATACTCGTTAAAAAAATTTACTGCTCT-ACTCGACTAGTTGCTCGTTAAGCTCACTAA
182292 AAATGTGT
65 AAATGTGT
* * **
182300 TCGACTCGTGCTCGTTAAAAAAATTTGTTGCTCTACTCGACTAGTTGCTCGTTAAGCTCACTAAA
1 TCGACTCATACTCGTTAAAAAAATTTACTGCTCTACTCGACTAGTTGCTCGTTAAGCTCACTAAA
182365 AAT
66 AAT
182368 TTTACCTTAT
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
72 57 0.98
73 1 0.02
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (72 bp):
TCGACTCATACTCGTTAAAAAAATTTACTGCTCTACTCGACTAGTTGCTCGTTAAGCTCACTAAA
AATGTGT
Found at i:187775 original size:14 final size:14
Alignment explanation
Indices: 187756--187784 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
187746 AAACATGTTT
187756 TATTATCATATTTA
1 TATTATCATATTTA
187770 TATTATCATATTTA
1 TATTATCATATTTA
187784 T
1 T
187785 TCTAAGTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (14 bp):
TATTATCATATTTA
Found at i:190221 original size:74 final size:72
Alignment explanation
Indices: 190067--190232 Score: 208
Period size: 74 Copynumber: 2.3 Consensus size: 72
190057 GATTAAACTC
*
190067 AAATTTAGGATAATATTTTAAACATTATATTTATCTTTATTTTAGTTTAAATAGGTTTTTAGTAT
1 AAATTTAGGATATTATTTTAAACATTATATTTATCTTTATTTTAGTTTAAATAGGTTTTTAGTAT
190132 TTTAATT
66 TTTAATT
* ** * * *
190139 AAATTTTAGGATATTATTTTATATTTTATCTTTATTTTTGTATTTTAGTTTAAATATG-TTTTAG
1 AAA-TTTAGGATATTATTTTAAACATTATATTTA-TCTT-TATTTTAGTTTAAATAGGTTTTTAG
190203 TATTTTAATT
63 TATTTTAATT
* *
190213 AGGATTTAGAATATTATTTT
1 A-AATTTAGGATATTATTTT
190233 TTTAGGTATT
Statistics
Matches: 81, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
72 3 0.04
73 25 0.31
74 35 0.43
75 18 0.22
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.57
Consensus pattern (72 bp):
AAATTTAGGATATTATTTTAAACATTATATTTATCTTTATTTTAGTTTAAATAGGTTTTTAGTAT
TTTAATT
Done.