Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_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: 20687664
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 79 of 91
Found at i:18081928 original size:14 final size:14
Alignment explanation
Indices: 18081909--18081965 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
18081899 TTGAAATGAA
18081909 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
18081923 AATCGCAACGCGAAATGAC
1 AATCGCAA--CG--A-GAG
18081942 AATCGCAACGAGAG
1 AATCGCAACGAGAG
18081956 AATCGCAACG
1 AATCGCAACG
18081966 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.42, C:0.25, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:18081946 original size:33 final size:33
Alignment explanation
Indices: 18081901--18081984 Score: 159
Period size: 33 Copynumber: 2.5 Consensus size: 33
18081891 TCTTTTGGTT
18081901 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
18081934 GAAATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
18081967 GAAATGAAAATCGCAACG
1 GAAATGAAAATCGCAACG
18081985 CGAAATAAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:18081947 original size:19 final size:19
Alignment explanation
Indices: 18081923--18082006 Score: 97
Period size: 19 Copynumber: 4.7 Consensus size: 19
18081913 GCAACGAGAG
*
18081923 AATCGCAACGCGAAATGAC
1 AATCGCAACGCGAAATGAA
*
18081942 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
18081956 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
18081975 AATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAATGAA
*
18081994 AATCGCAATGCGA
1 AATCGCAACGCGA
18082007 TTTTGGTTTC
Statistics
Matches: 56, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
14 10 0.18
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 40 0.71
ACGTcount: A:0.45, C:0.23, G:0.21, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:18082037 original size:14 final size:14
Alignment explanation
Indices: 18082018--18082074 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
18082008 TTTGGTTTCC
18082018 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
18082032 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
18082051 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
18082065 CGTTGCGATT
1 CGTTGCGATT
18082075 GTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:18082056 original size:19 final size:19
Alignment explanation
Indices: 18082032--18082120 Score: 80
Period size: 19 Copynumber: 4.9 Consensus size: 19
18082022 GCGATTCTCT
18082032 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
18082051 CGTTGCGA--TTC---TCT
1 CGTTGCGATTTTCATTTCG
*
18082065 CGTTGCGATTGTCATTTCG
1 CGTTGCGATTTTCATTTCG
*** *
18082084 CGTTGCGACAGTCATTCTCT
1 CGTTGCGATTTTCATT-TCG
18082104 CGTTGCGATTTTCATTT
1 CGTTGCGATTTTCATTT
18082121 ATCTCGTTGC
Statistics
Matches: 55, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
14 10 0.18
16 2 0.04
17 3 0.05
19 25 0.45
20 15 0.27
ACGTcount: A:0.11, C:0.24, G:0.21, T:0.44
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:18082112 original size:39 final size:33
Alignment explanation
Indices: 18082002--18082120 Score: 148
Period size: 33 Copynumber: 3.4 Consensus size: 33
18081992 AAAATCGCAA
** *
18082002 TGCGATTTTGGTTTCCCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
18082035 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
*
18082068 TGCGATTGTCATTTCGCGTTGCGACAGTCATTCTCTCGT
1 TGCGATTTTCATTTCGCGTT--G-C-G--ATTCTCTCGT
18082107 TGCGATTTTCATTT
1 TGCGATTTTCATTT
18082121 ATCTCGTTGC
Statistics
Matches: 75, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
33 49 0.65
35 1 0.01
36 1 0.01
37 1 0.01
39 23 0.31
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.45
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:18082254 original size:33 final size:33
Alignment explanation
Indices: 18082212--18082282 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
18082202 AATACTAACT
18082212 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
18082245 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
18082278 TGAAA
1 TGAAA
18082283 TCTAAGTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:18082691 original size:20 final size:20
Alignment explanation
Indices: 18082666--18082859 Score: 203
Period size: 20 Copynumber: 9.7 Consensus size: 20
18082656 CTTTAAATAT
18082666 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
18082686 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
* *
18082708 -TCGTTGCGATTTACCGATA
1 CGCGTTGCGATTTACGGATA
*
18082727 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
18082747 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
18082767 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
18082787 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* * *
18082807 CGCATTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
18082827 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
18082847 CGCGTTGCGATTT
1 CGCGTTGCGATTT
18082860 TGGAAAATCG
Statistics
Matches: 143, Mismatches: 26, Indels: 10
0.80 0.15 0.06
Matches are distributed among these distances:
19 2 0.01
20 124 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:18082831 original size:60 final size:60
Alignment explanation
Indices: 18082668--18082839 Score: 236
Period size: 60 Copynumber: 2.9 Consensus size: 60
18082658 TTAAATATCG
* ** *
18082668 CGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACCGATACG
1 CGTTGCGATTTACGGATACGCATTGCGA-TTTATGTATTCGCGTTGCGATTTACCGATACA
* *** * *
18082729 CGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATACA
1 CGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTACCGATACA
*
18082789 CGTTGCGATTTACGGATACGCATTGCGATTTATGTGTTCGCGTTGCGATTT
1 CGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTT
18082840 TCATATTCGC
Statistics
Matches: 95, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
60 69 0.73
61 26 0.27
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (60 bp):
CGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTACCGATACA
Found at i:18082853 original size:60 final size:60
Alignment explanation
Indices: 18082665--18082980 Score: 232
Period size: 60 Copynumber: 5.2 Consensus size: 60
18082655 GCTTTAAATA
* ** * *
18082665 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACCGAT
1 TCGCGTTGCGATTTACGGATACGCATTGCGA-TTTATGTATTCGCGTTGCGATTTTCAGAT
* * *** * * *
18082726 ACGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGAT
1 TCGCGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTTCAGAT
* * * *
18082786 ACACGTTGCGATTTACGGATACGCATTGCGATTTATGTGTTCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTTCAGAT
* * * * * *
18082846 TCGCGTTGCGATTT-TGGAAAATCGCAATGCGAATT-TG-ACTATCGCATTGCGATTTTCAAGAA
1 TCGCGTTGCGATTTACGG-ATA-CGCATTGCGATTTATGTA-T-TCGCGTTGCGATTTTC-AGAT
* * ** * * *
18082908 TCGCGTTGCGATTT-TGGAAACTG-ATTTGCGATTCTGGGGA-TCGCGTTGCGATTTTTA-TT
1 TCGCGTTGCGATTTACGGATAC-GCA-TTGCGATT-TATGTATTCGCGTTGCGATTTTCAGAT
18082967 TCGCGTTGCGATTT
1 TCGCGTTGCGATTT
18082981 TGTTGGTCAT
Statistics
Matches: 208, Mismatches: 37, Indels: 22
0.78 0.14 0.08
Matches are distributed among these distances:
59 16 0.08
60 92 0.44
61 78 0.38
62 20 0.10
63 1 0.00
64 1 0.00
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.36
Consensus pattern (60 bp):
TCGCGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTTCAGAT
Found at i:18082876 original size:21 final size:20
Alignment explanation
Indices: 18082826--18082923 Score: 79
Period size: 20 Copynumber: 4.8 Consensus size: 20
18082816 ATTTATGTGT
* * * *
18082826 TCGCGTTGCGATTTTCATAT
1 TCGCATTGCGATTTTGAAAA
*
18082846 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTT-GAAAA
* * **
18082867 TCGCAATGCGAATTTGACTA
1 TCGCATTGCGATTTTGAAAA
*
18082887 TCGCATTGCGATTTTCAAGAA
1 TCGCATTGCGATTTTGAA-AA
*
18082908 TCGCGTTGCGATTTTG
1 TCGCATTGCGATTTTG
18082924 GAAACTGATT
Statistics
Matches: 61, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
20 32 0.52
21 29 0.48
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (20 bp):
TCGCATTGCGATTTTGAAAA
Found at i:18082899 original size:61 final size:60
Alignment explanation
Indices: 18082826--18082982 Score: 176
Period size: 61 Copynumber: 2.6 Consensus size: 60
18082816 ATTTATGTGT
*
18082826 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGGAAAATCGCA-ATGCGAATT-TGACTA
1 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGGAAAAT-G-ATATGCG-ATTCTGACGA
* * * * * **
18082887 TCGCATTGCGATTTTCAAGAATCGCGTTGCGATTTTGGAAACTGATTTGCGATTCTGGGGA
1 TCGCGTTGCGATTTTC-ATATTCGCGTTGCGATTTTGGAAAATGATATGCGATTCTGACGA
*
18082948 TCGCGTTGCGATTTTTAT-TTCGCGTTGCGATTTTG
1 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTG
18082983 TTGGTCATTT
Statistics
Matches: 81, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
59 16 0.20
60 5 0.06
61 37 0.46
62 23 0.28
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.38
Consensus pattern (60 bp):
TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGGAAAATGATATGCGATTCTGACGA
Found at i:18082918 original size:41 final size:41
Alignment explanation
Indices: 18082826--18082982 Score: 110
Period size: 41 Copynumber: 3.9 Consensus size: 41
18082816 ATTTATGTGT
* * *
18082826 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTGCAAAA
** *
18082867 TCGCAATGCGAATTTGACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGATTTTGA-TATTCGCATTGCGATTTTGCAA-AA
* * * ***
18082908 TCGCGTTGCGATTTTGGAAACT-G-ATTTGCGATTCTG-GGGA
1 TCGCGTTGCGATTTT-GATATTCGCA-TTGCGATTTTGCAAAA
* *
18082948 TCGCGTTGCGATTTTTAT-TTCGCGTTGCGATTTTG
1 TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTG
18082983 TTGGTCATTT
Statistics
Matches: 89, Mismatches: 19, Indels: 18
0.71 0.15 0.14
Matches are distributed among these distances:
38 1 0.01
39 12 0.13
40 19 0.21
41 52 0.58
42 5 0.06
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTGCAAAA
Found at i:18090728 original size:23 final size:23
Alignment explanation
Indices: 18090680--18090729 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
18090670 ATCATGGTTA
*
18090680 TTCATGAAAAATAATTAAGTCTT
1 TTCATGAAAAATAATTAAGTCAT
* **
18090703 TTCATGAAAAATAGTTATTTCAT
1 TTCATGAAAAATAATTAAGTCAT
18090726 TTCA
1 TTCA
18090730 CCCAAAATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (23 bp):
TTCATGAAAAATAATTAAGTCAT
Found at i:18094849 original size:35 final size:35
Alignment explanation
Indices: 18094785--18094884 Score: 110
Period size: 35 Copynumber: 2.7 Consensus size: 35
18094775 TTTCGTCCTA
* *
18094785 CTAGGATTCAAACTCTCAAAAATATGATAGAATTCTG
1 CTAGGATTC-AACTC-CTAAAATAGGATAGAATTCTG
*
18094822 CTAGGATTCAACTCCTAAAATAGGATAGAATTTTG
1 CTAGGATTCAACTCCTAAAATAGGATAGAATTCTG
** *
18094857 CTATGTTTTAAACTCCTAAAGATAGGAT
1 CTA-GGATTCAACTCCTAAA-ATAGGAT
18094885 CCACAAGCAC
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
35 21 0.38
36 18 0.33
37 16 0.29
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (35 bp):
CTAGGATTCAACTCCTAAAATAGGATAGAATTCTG
Found at i:18095203 original size:24 final size:22
Alignment explanation
Indices: 18095138--18095212 Score: 68
Period size: 24 Copynumber: 3.4 Consensus size: 22
18095128 TGTTTTGTTA
*
18095138 TTTTTTTTT-CA-TGTA-ATAT
1 TTTTTTTTTACATTTTATATAT
*
18095157 TTTTTTTTTACATTTTATGTAT
1 TTTTTTTTTACATTTTATATAT
18095179 TTTCTTTTTTAC-TTTAGTATATAT
1 TTT-TTTTTTACATTT--TATATAT
18095203 TTTTATTTTT
1 TTTT-TTTTT
18095213 TTTAGATTAT
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
19 9 0.20
20 2 0.04
21 3 0.07
22 9 0.20
23 9 0.20
24 14 0.30
ACGTcount: A:0.19, C:0.05, G:0.04, T:0.72
Consensus pattern (22 bp):
TTTTTTTTTACATTTTATATAT
Found at i:18095327 original size:36 final size:37
Alignment explanation
Indices: 18095255--18095339 Score: 127
Period size: 36 Copynumber: 2.3 Consensus size: 37
18095245 ATTATCAGTT
*
18095255 TTATTAATTTATATATATATATATATTTACTTTTTTA
1 TTATTATTTTATATATATATATATATTTACTTTTTTA
* *
18095292 TTTTTATTTTATATATATAT-TATTTTTACTTTTTTA
1 TTATTATTTTATATATATATATATATTTACTTTTTTA
*
18095328 TTATTGTTTTAT
1 TTATTATTTTAT
18095340 TTATTTGTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 25 0.58
37 18 0.42
ACGTcount: A:0.28, C:0.02, G:0.01, T:0.68
Consensus pattern (37 bp):
TTATTATTTTATATATATATATATATTTACTTTTTTA
Found at i:18095518 original size:15 final size:15
Alignment explanation
Indices: 18095500--18095529 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
18095490 TATTTATTTC
18095500 TTACCTTTTTATCTA
1 TTACCTTTTTATCTA
18095515 TTACCTTTTTATCTA
1 TTACCTTTTTATCTA
18095530 ACATGGTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.00, T:0.60
Consensus pattern (15 bp):
TTACCTTTTTATCTA
Found at i:18098543 original size:8 final size:8
Alignment explanation
Indices: 18098532--18098588 Score: 51
Period size: 8 Copynumber: 6.6 Consensus size: 8
18098522 CAAAAAGGGC
18098532 AAAAAGAA
1 AAAAAGAA
18098540 AAAAAGAA
1 AAAAAGAA
*
18098548 AAGAAGCAA
1 AAAAAG-AA
*
18098557 AAAAGGAAAA
1 AAAA--AGAA
18098567 AAAAAGAA
1 AAAAAGAA
*
18098575 CAAAAATAA
1 -AAAAAGAA
18098584 AAAAA
1 AAAAA
18098589 AGGGGACAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
8 21 0.52
9 12 0.30
10 6 0.15
11 1 0.03
ACGTcount: A:0.82, C:0.04, G:0.12, T:0.02
Consensus pattern (8 bp):
AAAAAGAA
Found at i:18099227 original size:22 final size:22
Alignment explanation
Indices: 18099199--18099249 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
18099189 CCCCATCAAT
18099199 CCTTTGAGCATCAAATACCAAA
1 CCTTTGAGCATCAAATACCAAA
*
18099221 CCTTTGAGCATCAAATGCCAAA
1 CCTTTGAGCATCAAATACCAAA
18099243 CCTTTGA
1 CCTTTGA
18099250 CCAAACACAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.25
Consensus pattern (22 bp):
CCTTTGAGCATCAAATACCAAA
Found at i:18100204 original size:37 final size:37
Alignment explanation
Indices: 18100110--18100219 Score: 159
Period size: 37 Copynumber: 3.0 Consensus size: 37
18100100 GTGCTCACCA
*
18100110 TTGTCTCTCTTGAGACAATTTCCCTTGAAAC-AAACT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACT
*
18100146 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACT
* * *
18100183 TTTTCTCCCTTGAGACAGTTTCTCTTGAAACATAAAC
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACA-AAAC
18100220 ATTGAAAACA
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
36 30 0.45
37 33 0.50
38 3 0.05
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.37
Consensus pattern (37 bp):
TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACT
Found at i:18100303 original size:102 final size:102
Alignment explanation
Indices: 18100127--18100585 Score: 756
Period size: 102 Copynumber: 4.5 Consensus size: 102
18100117 TCTTGAGACA
** * * *
18100127 ATTTCCCTTGAAACAAACTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTTTCTCCC
1 ATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCC
18100192 TTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
66 TTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
* ** *
18100229 ATTTCCCTTGAAATGAGTTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTCCGTCTCCA
1 ATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCC
*
18100294 TTGAGACAGTTTCTCTTGAAACATAAACATTGGAAAC
66 TTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
18100331 ATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCC
1 ATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCC
*
18100396 TTGATACAGTTTCTCTTGAAACATAAACATTGAAAAC
66 TTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
* * *
18100433 ATTTCCCTTGAAATGCATTTTGTCTCTCTTGAGATAGTTTCCCTCGAAACAAAATTTTTTCTCCC
1 ATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCC
18100498 TTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
66 TTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
* * * *
18100535 ATTTCCCTTGAAATGAATTTCGTCTTTCTTGAGATAATTTCTCTTGAAACA
1 ATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACA
18100586 TAAACATTGA
Statistics
Matches: 331, Mismatches: 26, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
102 331 1.00
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.37
Consensus pattern (102 bp):
ATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCC
TTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
Found at i:18100399 original size:37 final size:37
Alignment explanation
Indices: 18100332--18100418 Score: 113
Period size: 37 Copynumber: 2.4 Consensus size: 37
18100322 ATTGGAAACA
** * *
18100332 TTTCCCTTGAAA-TGAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
*
18100368 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGATACAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
*
18100405 TTTCTCTTGAAACA
1 TTTCCCTTGAAACA
18100419 TAAACATTGA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
36 12 0.27
37 32 0.73
ACGTcount: A:0.25, C:0.21, G:0.13, T:0.41
Consensus pattern (37 bp):
TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
Found at i:18100501 original size:37 final size:37
Alignment explanation
Indices: 18100449--18100520 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
18100439 CTTGAAATGC
* *
18100449 ATTTTGTCTCTCTTGAGATAGTTTCCCTCGAAACAAA
1 ATTTTGTCTCCCTTGAGACAGTTTCCCTCGAAACAAA
* * *
18100486 ATTTTTTCTCCCTTGAGACAGTTTCTCTTGAAACA
1 ATTTTGTCTCCCTTGAGACAGTTTCCCTCGAAACA
18100521 TAAACATTGA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.25, C:0.22, G:0.12, T:0.40
Consensus pattern (37 bp):
ATTTTGTCTCCCTTGAGACAGTTTCCCTCGAAACAAA
Found at i:18100565 original size:21 final size:19
Alignment explanation
Indices: 18100541--18100579 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
18100531 AAACATTTCC
18100541 CTTGAAATGAATTTCGTCTTT
1 CTTGAAAT-AATTTC-TCTTT
*
18100562 CTTGAGATAATTTCTCTT
1 CTTGAAATAATTTCTCTT
18100580 GAAACATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 6 0.35
21 7 0.41
ACGTcount: A:0.23, C:0.15, G:0.13, T:0.49
Consensus pattern (19 bp):
CTTGAAATAATTTCTCTTT
Found at i:18100576 original size:65 final size:65
Alignment explanation
Indices: 18100492--18100650 Score: 282
Period size: 65 Copynumber: 2.4 Consensus size: 65
18100482 CAAAATTTTT
*
18100492 TCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTCG
1 TCTCTCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTCG
* * *
18100557 TCTTTCTTGAGATAATTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTCG
1 TCTCTCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTCG
18100622 TCTCTCTTGAGACAGTTTCTCTTGAAACA
1 TCTCTCTTGAGACAGTTTCTCTTGAAACA
18100651 AAATTTTGTC
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
65 87 1.00
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.36
Consensus pattern (65 bp):
TCTCTCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTCG
Found at i:18101416 original size:160 final size:160
Alignment explanation
Indices: 18101152--18101489 Score: 586
Period size: 160 Copynumber: 2.1 Consensus size: 160
18101142 CAATACAAGT
*
18101152 TCAACTTCACAACGAAGGGATGGCTGGTTCTCAACAATAATTTCCCAGTTTCAGGGCCAATTTTA
1 TCAACTTCACAACGAAGGGACGGCTGGTTCTCAACAATAATTTCCCAGTTTCAGGGCCAATTTTA
* *
18101217 ACTTCACAATGAAGGATATTGGACCCAAGACAGCACAAGCTCAACTTCACAGTGAAGGGGCGGCT
66 ACTTCACAACGAAGGATATTGGACCCAAGACAGCACAAGCTCAACTTCACAGCGAAGGGGCGGCT
* * *
18101282 GACTGTCGACAAATAATTTTGGAGCCAACC
131 GACTGTCGACAAACAATTTCGGAGCCAAAC
*
18101312 TCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAATAATTTCCCAGTTTCAGGGCCAATTTTA
1 TCAACTTCACAACGAAGGGACGGCTGGTTCTCAACAATAATTTCCCAGTTTCAGGGCCAATTTTA
*
18101377 ACTTCACAGCGAAGGATATTGGACCCAAGACAGCACAAGCTCAACTTCACAGCGAAGGGGCGGCT
66 ACTTCACAACGAAGGATATTGGACCCAAGACAGCACAAGCTCAACTTCACAGCGAAGGGGCGGCT
*
18101442 GACTGTCGACAAGCAATTTCGGAGCCAAAC
131 GACTGTCGACAAACAATTTCGGAGCCAAAC
*
18101472 TCAACTTCACAGCGAAGG
1 TCAACTTCACAACGAAGG
18101490 ATATTGGACT
Statistics
Matches: 168, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
160 168 1.00
ACGTcount: A:0.32, C:0.25, G:0.22, T:0.21
Consensus pattern (160 bp):
TCAACTTCACAACGAAGGGACGGCTGGTTCTCAACAATAATTTCCCAGTTTCAGGGCCAATTTTA
ACTTCACAACGAAGGATATTGGACCCAAGACAGCACAAGCTCAACTTCACAGCGAAGGGGCGGCT
GACTGTCGACAAACAATTTCGGAGCCAAAC
Found at i:18101753 original size:106 final size:104
Alignment explanation
Indices: 18101312--18101922 Score: 568
Period size: 106 Copynumber: 5.9 Consensus size: 104
18101302 GGAGCCAACC
* * ** *
18101312 TCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAATA-ATTTCCCAGTTTCAGGGCCAATTTT
1 TCAACTTCACAACGAAGGGACGGCTGATTGTCAACAA-ACATTT-TCAGTTTCAAAGCCAATTTC
* * * *
18101376 AACTTCACAGCGAAGGATATTGGACCCAAGACAGCACAAGC
64 AACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGT
* * * * * ** **
18101417 TCAACTTCACAGCGAAGGGGCGGCTGACTGTCGACAAGCA-----A-TTTCGGAGCCAAACTCAA
1 TCAACTTCACAACGAAGGGACGGCTGATTGTCAACAAACATTTTCAGTTTCAAAGCCAATTTCAA
*
18101476 CTTCACAGCGAAGGATATTGGACTCGAGAAAACACAAGT
66 CTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGT
* * * * *
18101515 TCAACTTCACAGCGAAGGGACTGCTGGTTGTCAACGAACAACTTTTCAGTTTC--ATCCACGATT
1 TCAACTTCACAACGAAGGGACGGCTGATTGTCAACAAAC-A-TTTTCAGTTTCAAAGCCA--ATT
* * *
18101578 TCAACTCCAC-GACGGAGGATATCGTGCCACTCGAGACAACACAAGT
62 TCAACTTCACAG-CGAAGGATAT--TG-GACTCGAGACAACACAAGT
* *
18101624 TCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACATTTTTCAAATTTCAAAGCCAATTTC
1 TCAACTTCACAACGAAGGGACGGCTGATTGTCAACAAACA-TTTTC-AGTTTCAAAGCCAATTTC
*
18101689 AACTTCGCAGCGAAGGATATTGGACTCGAGACAACACAAGT
64 AACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGT
* * * * *
18101730 TCAACTTCACAATGAAGGGACGGCTGATTGTCAAC-AAGA-TTTC-G-TTCAGAGTCAATTTCAT
1 TCAACTTCACAACGAAGGGACGGCTGATTGTCAACAAACATTTTCAGTTTCAAAGCCAATTTCAA
* * * * *
18101791 CTTCATAGAGAAGGATATTAGACTCGAGACAGCACAAGC
66 CTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGT
* * * * *
18101830 TCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAATTTCCCAGTTCCAGAA-CCAATTT
1 TCAACTTCACAACGAAGGGACGGCTGATTGTCAACAAAC-ATTT-TCAGTTTCA-AAGCCAATTT
*
18101894 CAACTTCACAGCGGAGGATATTGGACTCG
63 CAACTTCACAGCGAAGGATATTGGACTCG
18101923 GAATAATATT
Statistics
Matches: 413, Mismatches: 67, Indels: 51
0.78 0.13 0.10
Matches are distributed among these distances:
98 79 0.19
99 2 0.00
100 78 0.19
101 2 0.00
102 1 0.00
103 6 0.01
104 5 0.01
105 39 0.09
106 107 0.26
107 3 0.01
108 8 0.02
109 78 0.19
110 1 0.00
111 4 0.01
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.22
Consensus pattern (104 bp):
TCAACTTCACAACGAAGGGACGGCTGATTGTCAACAAACATTTTCAGTTTCAAAGCCAATTTCAA
CTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGT
Found at i:18101896 original size:315 final size:310
Alignment explanation
Indices: 18101312--18101914 Score: 748
Period size: 315 Copynumber: 1.9 Consensus size: 310
18101302 GGAGCCAACC
* * ** *
18101312 TCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAATAATTTCCCAGTTTCAGGGCCAATTTTA
1 TCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAATAATTTCCAAATTTCAAAGCCAATTTCA
* * *
18101377 ACTTCACAGCGAAGGATATTGGACCCAAGACAGCACAAGCTCAACTTCACAGCGAAGGGGCGGCT
66 ACTTCACAGCGAAGGATATTGGACCCAAGACAACACAAGCTCAACTTCACAACGAAGGGACGGCT
* * *
18101442 GACTGTCGACAAGCAATTTCGGAGCCAAACTCAACTTCACAGCGAAGGATATTGGACTCGAGAAA
131 GACTGTCAACAAG-AATTTCGGAGCCAAACTCAACTTCACAGAGAAGGATATTAGACTCGAGAAA
* * ** * * * *
18101507 ACACAAGTTCAACTTCACAGCGAAGGGACTGCTGGTTGTCAACGAACAACTTTTCAGTTTCATCC
195 ACACAAGCTCAACTTCACAGCGAAGGGACGGCTGACTGTCAACAAACAACTTTCCAGTTCCAACC
18101572 ACGATTTCAACTCCAC-GACGGAGGATATCGTGCCACTCGAGACAACACAAGT
260 AC-ATTTCAACTCCACAG-CGGAGGATATCGTGCCACTCGAGACAACACAAGT
*
18101624 TCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAA-ACATTTTTCAAATTTCAAAGCCAATTT
1 TCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAATA-A-TTTCCAAATTTCAAAGCCAATTT
* * * * *
18101688 CAACTTCGCAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAATGAAGGGACGG
64 CAACTTCACAGCGAAGGATATTGGACCCAAGACAACACAAGCTCAACTTCACAACGAAGGGACGG
* * ** * *
18101753 CTGATTGTCAACAAG-ATTTCGTTCAGAGTCAATTTCATCTTCATAGAGAAGGATATTAGACTCG
129 CTGACTGTCAACAAGAATTTCG----GAGCCAAACTCAACTTCACAGAGAAGGATATTAGACTCG
* * *
18101817 AGACAGCACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAA-TTTCCCAGTT
190 AGAAAACACAAGCTCAACTTCACAGCGAAGGGACGGCTGACTGTCAACAAACAACTTT-CCAGTT
*
18101881 CCAGAACCA-ATTTCAACTTCACAGCGGAGGATAT
254 CC--AACCACATTTCAACTCCACAGCGGAGGATAT
18101915 TGGACTCGGA
Statistics
Matches: 246, Mismatches: 35, Indels: 17
0.83 0.12 0.06
Matches are distributed among these distances:
311 7 0.03
312 38 0.15
313 87 0.35
314 3 0.01
315 106 0.43
316 1 0.00
317 4 0.02
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.22
Consensus pattern (310 bp):
TCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAATAATTTCCAAATTTCAAAGCCAATTTCA
ACTTCACAGCGAAGGATATTGGACCCAAGACAACACAAGCTCAACTTCACAACGAAGGGACGGCT
GACTGTCAACAAGAATTTCGGAGCCAAACTCAACTTCACAGAGAAGGATATTAGACTCGAGAAAA
CACAAGCTCAACTTCACAGCGAAGGGACGGCTGACTGTCAACAAACAACTTTCCAGTTCCAACCA
CATTTCAACTCCACAGCGGAGGATATCGTGCCACTCGAGACAACACAAGT
Found at i:18102446 original size:35 final size:35
Alignment explanation
Indices: 18102383--18102482 Score: 119
Period size: 35 Copynumber: 2.7 Consensus size: 35
18102373 TTTCGTCCTA
*
18102383 CTAGGATTCAAACTCTCAAAAATAGGATAGAATTCTG
1 CTAGGATTC-AACTC-CTAAAATAGGATAGAATTCTG
*
18102420 CTAGGATTCAACTCCTAAAATAGGATAGAATTTTG
1 CTAGGATTCAACTCCTAAAATAGGATAGAATTCTG
** *
18102455 CTATGTTTTAAACTCCTAAAGATAGGAT
1 CTA-GGATTCAACTCCTAAA-ATAGGAT
18102483 CCACAAGCAC
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
35 22 0.39
36 18 0.32
37 16 0.29
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (35 bp):
CTAGGATTCAACTCCTAAAATAGGATAGAATTCTG
Found at i:18102876 original size:42 final size:43
Alignment explanation
Indices: 18102809--18102907 Score: 109
Period size: 42 Copynumber: 2.4 Consensus size: 43
18102799 TTAGTATATA
*
18102809 TTTTTAT-TTTTT-TTAGATTATATATAAAAATATA-TTATTT
1 TTTTTATATTTTTATTAGATTATATATAAAAATATATTTACTT
* *
18102849 TTTATTATCATTTTTATTA-ATT-TATATATATATATATTTACTT
1 TTT-TTAT-ATTTTTATTAGATTATATATAAAAATATATTTACTT
*
18102892 TTTTTATTTTTTTATT
1 TTTTTATATTTTTATT
18102908 TTATATATAT
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
40 3 0.06
41 12 0.24
42 16 0.32
43 16 0.32
44 3 0.06
ACGTcount: A:0.30, C:0.02, G:0.01, T:0.67
Consensus pattern (43 bp):
TTTTTATATTTTTATTAGATTATATATAAAAATATATTTACTT
Found at i:18102901 original size:8 final size:8
Alignment explanation
Indices: 18102885--18103006 Score: 52
Period size: 9 Copynumber: 14.0 Consensus size: 8
18102875 TATATATATA
18102885 TTTACTTTT
1 TTTA-TTTT
18102894 TTTATTTT
1 TTTATTTT
18102902 TTTATTTTAT
1 TTTA-TTT-T
18102912 ATATATATTATT
1 -T-T-TATT-TT
*
18102924 TTTACTTT
1 TTTATTTT
18102932 TTTA--TT
1 TTTATTTT
*
18102938 ATTATTTT
1 TTTATTTT
18102946 ATTTATTTGT
1 -TTTATTT-T
*
18102956 TTTATTTC
1 TTTATTTT
*
18102964 TATATTTT
1 TTTATTTT
*
18102972 TTTCTTCTT
1 TTTATT-TT
*
18102981 TTTCTTTAT
1 TTTATTT-T
18102990 TTT-TTTAT
1 TTTATTT-T
18102998 ATTTATTTT
1 -TTTATTTT
18103007 ACTTACTATT
Statistics
Matches: 91, Mismatches: 8, Indels: 28
0.72 0.06 0.22
Matches are distributed among these distances:
6 5 0.05
8 32 0.35
9 39 0.43
10 6 0.07
11 2 0.02
12 4 0.04
13 3 0.03
ACGTcount: A:0.18, C:0.05, G:0.01, T:0.76
Consensus pattern (8 bp):
TTTATTTT
Found at i:18102902 original size:9 final size:9
Alignment explanation
Indices: 18102885--18103007 Score: 52
Period size: 10 Copynumber: 12.4 Consensus size: 9
18102875 TATATATATA
*
18102885 TTTACTTTT
1 TTTATTTTT
18102894 TTTA-TTTT
1 TTTATTTTT
18102902 TTTATTTTAT
1 TTTATTTT-T
*
18102912 ATATATATTATT
1 -T-T-TATTTTT
18102924 TTTACTTTTT
1 TTTA-TTTTT
18102934 TATTATTATTTT
1 T-TTA-T-TTTT
*
18102946 ATTTATTTGT
1 -TTTATTTTT
18102956 TTTATTTCTAT
1 TTTATTT-T-T
*
18102967 ATT-TTTTT
1 TTTATTTTT
* *
18102975 CTTCTTTTT
1 TTTATTTTT
18102984 CTTTATTTTT
1 -TTTATTTTT
*
18102994 TTATATTTAT
1 TT-TATTTTT
18103004 TTTA
1 TTTA
18103008 CTTACTATTT
Statistics
Matches: 90, Mismatches: 10, Indels: 28
0.70 0.08 0.22
Matches are distributed among these distances:
8 11 0.12
9 26 0.29
10 28 0.31
11 10 0.11
12 9 0.10
13 6 0.07
ACGTcount: A:0.19, C:0.05, G:0.01, T:0.76
Consensus pattern (9 bp):
TTTATTTTT
Found at i:18102915 original size:30 final size:30
Alignment explanation
Indices: 18102879--18103010 Score: 91
Period size: 30 Copynumber: 4.4 Consensus size: 30
18102869 TTTATATATA
18102879 TATATATTTACTTTTTTTATTTTTTTATTT
1 TATATATTTACTTTTTTTATTTTTTTATTT
* *
18102909 TATATATATA-TTATTTTTACTTTTTTATTAT
1 TATATATTTACTT-TTTTTATTTTTTTATT-T
* * *
18102940 TATTTTATTTA-TTTGTTTTATTTCTATATTT
1 TA-TATATTTACTTT-TTTTATTTTTTTATTT
*
18102971 T-T-T-TCTT-CTTTTTCTTTATTTTTTTATAT
1 TATATAT-TTAC-TTTT-TTTATTTTTTTATTT
18103000 T-TAT-TTTACTT
1 TATATATTTACTT
18103011 ACTATTTTAT
Statistics
Matches: 82, Mismatches: 10, Indels: 21
0.73 0.09 0.19
Matches are distributed among these distances:
27 1 0.01
28 4 0.05
29 24 0.29
30 27 0.33
31 6 0.07
32 20 0.24
ACGTcount: A:0.20, C:0.05, G:0.01, T:0.74
Consensus pattern (30 bp):
TATATATTTACTTTTTTTATTTTTTTATTT
Found at i:18102933 original size:38 final size:39
Alignment explanation
Indices: 18102809--18102943 Score: 123
Period size: 38 Copynumber: 3.4 Consensus size: 39
18102799 TTAGTATATA
* * * *
18102809 TTTTTATTTTTTTTAGA-TTATATATAAAAATATATTATTTT
1 TTTTTATTTTTATTA-ATTTATATATATATATAT-TTA-CTT
18102850 TTATTATCATTTTTATTAATTTATATATATATATATTTACTT
1 TT-TT-T-ATTTTTATTAATTTATATATATATATATTTACTT
* *
18102892 TTTTTATTTTT-TTATTTTATATATATATTATTTTTAC-T
1 TTTTTATTTTTATTAATTTATATATATA-TATATTTACTT
*
18102930 TTTTTATTATTATT
1 TTTTTATTTTTATT
18102944 TTATTTATTT
Statistics
Matches: 81, Mismatches: 7, Indels: 14
0.79 0.07 0.14
Matches are distributed among these distances:
38 26 0.32
39 16 0.20
40 1 0.01
41 4 0.05
42 6 0.07
43 5 0.06
44 23 0.28
ACGTcount: A:0.30, C:0.02, G:0.01, T:0.67
Consensus pattern (39 bp):
TTTTTATTTTTATTAATTTATATATATATATATTTACTT
Found at i:18102934 original size:25 final size:24
Alignment explanation
Indices: 18102906--18102982 Score: 70
Period size: 24 Copynumber: 3.2 Consensus size: 24
18102896 TATTTTTTTA
18102906 TTTTATATATATATTATTTTTACTT-
1 TTTTAT-TATATATT-TTTTTACTTC
* *
18102931 TTTTATTAT-TATTTTATTTATTTG
1 TTTTATTATATATTTT-TTTACTTC
*
18102955 TTTTATTTCTATATTTTTTT-CTTC
1 TTTTA-TTATATATTTTTTTACTTC
18102979 TTTT
1 TTTT
18102983 TCTTTATTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
22 2 0.05
23 10 0.23
24 14 0.32
25 12 0.27
26 6 0.14
ACGTcount: A:0.19, C:0.05, G:0.01, T:0.74
Consensus pattern (24 bp):
TTTTATTATATATTTTTTTACTTC
Found at i:18102960 original size:49 final size:50
Alignment explanation
Indices: 18102893--18103007 Score: 130
Period size: 49 Copynumber: 2.4 Consensus size: 50
18102883 TATTTACTTT
*
18102893 TTTTATTTTTTTATTTTATATATATATTATTTT-TACTTTTT-TATTATTA
1 TTTTATTTATTTATTTTATATATATATTATTTTCTACTTTTTCT-TTATTA
* * * * *
18102942 TTTTATTTATTTGTTTTATTTCTATATTTTTTTCTTCTTTTTCTTTATT-
1 TTTTATTTATTTATTTTATATATATATTATTTTCTACTTTTTCTTTATTA
*
18102991 TTTT-TATATTTATTTTA
1 TTTTATTTATTTATTTTA
18103008 CTTACTATTT
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
48 11 0.20
49 32 0.57
50 12 0.21
51 1 0.02
ACGTcount: A:0.19, C:0.04, G:0.01, T:0.76
Consensus pattern (50 bp):
TTTTATTTATTTATTTTATATATATATTATTTTCTACTTTTTCTTTATTA
Found at i:18102962 original size:38 final size:39
Alignment explanation
Indices: 18102869--18102949 Score: 119
Period size: 41 Copynumber: 2.1 Consensus size: 39
18102859 TTTTTATTAA
* *
18102869 TTTATATATATA-TATATTTACTTTTTTTATTTTTTTAT
1 TTTATATATATATTATTTTTACTTTTTTTATTATTTTAT
18102907 TTTATATATATATTATTTTTACTTTTTTATTATTATTTTAT
1 TTTATATATATATTATTTTTAC-TTTTT-TTATTATTTTAT
18102948 TT
1 TT
18102950 ATTTGTTTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
38 12 0.32
39 8 0.21
40 5 0.13
41 13 0.34
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (39 bp):
TTTATATATATATTATTTTTACTTTTTTTATTATTTTAT
Found at i:18102969 original size:21 final size:21
Alignment explanation
Indices: 18102929--18103005 Score: 63
Period size: 21 Copynumber: 3.7 Consensus size: 21
18102919 TTATTTTTAC
18102929 TTTTTTATTATTA-TT-T-TAT
1 TTTTTTATT-TTATTTCTATAT
* *
18102948 TTATTTGTTTTATTTCTATAT
1 TTTTTTATTTTATTTCTATAT
* *
18102969 TTTTTTCTTCTT-TTTCTTTAT
1 TTTTTTATT-TTATTTCTATAT
18102990 TTTTTTATATTTATTT
1 TTTTTTAT-TTTATTT
18103006 TACTTACTAT
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
18 3 0.07
19 9 0.20
20 1 0.02
21 27 0.59
22 6 0.13
ACGTcount: A:0.16, C:0.05, G:0.01, T:0.78
Consensus pattern (21 bp):
TTTTTTATTTTATTTCTATAT
Found at i:18103112 original size:15 final size:15
Alignment explanation
Indices: 18103094--18103123 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
18103084 TATTTATTTC
18103094 TTACCTTTTTATCTA
1 TTACCTTTTTATCTA
18103109 TTACCTTTTTATCTA
1 TTACCTTTTTATCTA
18103124 ACATGGTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.00, T:0.60
Consensus pattern (15 bp):
TTACCTTTTTATCTA
Found at i:18104897 original size:15 final size:15
Alignment explanation
Indices: 18104871--18104913 Score: 79
Period size: 15 Copynumber: 2.9 Consensus size: 15
18104861 AATGTTCTAC
18104871 TACTTT-CTTTCAAA
1 TACTTTCCTTTCAAA
18104885 TACTTTCCTTTCAAA
1 TACTTTCCTTTCAAA
18104900 TACTTTCCTTTCAA
1 TACTTTCCTTTCAA
18104914 TCCTCCGATT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
14 6 0.21
15 22 0.79
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.49
Consensus pattern (15 bp):
TACTTTCCTTTCAAA
Found at i:18107322 original size:20 final size:22
Alignment explanation
Indices: 18107281--18107329 Score: 66
Period size: 20 Copynumber: 2.3 Consensus size: 22
18107271 AAAATAAAAA
*
18107281 TAAAAATAAAACGAAGAACTTT
1 TAAAAATAAAACGAAAAACTTT
18107303 TAAAAAT-AAA-GAAAAACTTT
1 TAAAAATAAAACGAAAAACTTT
18107323 TATAAAA
1 TA-AAAA
18107330 CTAGAGGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 11 0.44
21 7 0.28
22 7 0.28
ACGTcount: A:0.63, C:0.06, G:0.06, T:0.24
Consensus pattern (22 bp):
TAAAAATAAAACGAAAAACTTT
Found at i:18108329 original size:16 final size:16
Alignment explanation
Indices: 18108310--18108340 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18108300 AAAATAAAAG
*
18108310 TAAAAATATAAACATA
1 TAAAAACATAAACATA
18108326 TAAAAACATAAACAT
1 TAAAAACATAAACAT
18108341 TTTTTAATGT
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:0.68, C:0.10, G:0.00, T:0.23
Consensus pattern (16 bp):
TAAAAACATAAACATA
Found at i:18109941 original size:5 final size:5
Alignment explanation
Indices: 18109858--18109922 Score: 85
Period size: 5 Copynumber: 12.6 Consensus size: 5
18109848 TGTTCAGTGA
** *
18109858 AAAAT AAAAT AAAGCAT ATGAT AAAAT AAAAT AAAAT AAAAT AAAAT GAAAT
1 AAAAT AAAAT AAA--AT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
18109910 AAAAT AAAAT AAA
1 AAAAT AAAAT AAA
18109923 GTATGCTAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
5 49 0.94
7 3 0.06
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:18113228 original size:418 final size:414
Alignment explanation
Indices: 18112444--18113270 Score: 1073
Period size: 418 Copynumber: 2.0 Consensus size: 414
18112434 TTATAATGAT
* * *
18112444 AAAATATATTGTCACAAAGATTTCCCTCCATATTGTTTTGCGCCAAAAAGTCATATGGTGAAAAA
1 AAAATATATTATCACAAAGATTTCCCTCCATATTGTTTTGCGCCAAAAAATCATATAGTGAAAAA
*
18112509 TTTTGTAACTATAAGTGTTAATAATTATTACAAAAAAAAATATTGTCACAAAAAATAATGATATT
66 TTTTGTAACTATAAGTGTTAATAATTATTACAAAAAAAAATATTGTAACAAAAAATAATGATATT
* *
18112574 CACGTTTTTGTAACAAATTATATATTTAGTTATAAATTTTAACTATAGTATAACATATATTGTAA
131 CACATTTTTGTAACAAATTATATATGTAGTTATAAATTTTAACTATAGTATAACATATATTGTAA
* * *
18112639 TAATTATTTTTCTCCACTTTTCTGTTTCAAAAGTTATATTGACAATTTTTATAATTATAATTTAT
196 TAAATATTTTTCTCCACTTTTCTGTTTCAAAAGTGATATTGACAAGTTTTATAATTATAATTTAT
* **
18112704 ATTTTTTATAAAATATTATCACATCAATTAATAAAATTCAACTTTTTTTTGTAATAAAGTATTTT
261 ATTTTTTATAAAAAATTATCACATCAATTAATAAAATTCAACAGTTTTTTGTAATAAAGTATTTT
* * *
18112769 TGTACTTATATATTTTAATCATTATGAAAAATTATACTATCAGAACCATTTCTCTATATTTTTCA
326 TGTACTTATATATTTTAATCATTATAAAAAATTATACTATCAGAAACATTTCTCCATATTTTTCA
*
18112834 GTGTAAAAAATGTTATATAGTAAC
391 GTGCAAAAAATGTTATATAGTAAC
* * * * *
18112858 AAAATATATTATTATAAAGATTTTCCTCCATATTTTTTTGTGCCAAAAAAATCATATAGT-AATA
1 AAAATATATTATCACAAAGATTTCCCTCCATATTGTTTTGCGCC-AAAAAATCATATAGTGAA-A
* * * * * *
18112922 ATTTTTGTAAGTATAAGTGTTTATAATTATTAC-AATAAACAT-TT-TAAC-AAAAATAATGGTA
64 AATTTTGTAACTATAAGTGTTAATAATTATTACAAAAAAAAATATTGTAACAAAAAATAATGATA
* * * * *
18112983 TTCACATTTTTGTGATAAATTATACT-TGTAGTTATAAATTTTTATTATAGTGATGACATATATT
129 TTCACATTTTTGTAACAAATTATA-TATGTAGTTATAAATTTTAACTATAGT-ATAACATATATT
* * *
18113047 GTGATAAATATTTTTCTCCACTTTTTTTCGTTTCAAAAAGTGATATTG-CTAAGTTTTGTAATTA
192 GTAATAAATATTTTTCTCCAC-TTTTCT-GTTTC-AAAAGTGATATTGAC-AAGTTTTATAATTA
18113111 TAATTTATAGTTATTGTTATAGAAAAAATTATCACATCAGA-TAATAAAATT-AA-AGTTTTTTG
253 TAATTTATA-TT-TT-TTAT--AAAAAATTATCACATCA-ATTAATAAAATTCAACAGTTTTTTG
* * *
18113173 TAATCAATTATTTTTGTTA-TTTTATATTTTAATCATTATAAAAAATTATACTATCAGAAACATT
312 TAATAAAGTATTTTTG-TACTTATATATTTTAATCATTATAAAAAATTATACTATCAGAAACATT
* **
18113237 TCTCCCTATTTTTTGGTGCAAAAAATGTTATATA
376 TCTCCATATTTTTCAGTGCAAAAAATGTTATATA
18113271 ATAAAAGTTA
Statistics
Matches: 357, Mismatches: 41, Indels: 26
0.84 0.10 0.06
Matches are distributed among these distances:
411 55 0.15
412 34 0.10
413 7 0.02
414 53 0.15
415 77 0.22
416 2 0.01
417 2 0.01
418 96 0.27
419 4 0.01
420 26 0.07
421 1 0.00
ACGTcount: A:0.39, C:0.09, G:0.08, T:0.44
Consensus pattern (414 bp):
AAAATATATTATCACAAAGATTTCCCTCCATATTGTTTTGCGCCAAAAAATCATATAGTGAAAAA
TTTTGTAACTATAAGTGTTAATAATTATTACAAAAAAAAATATTGTAACAAAAAATAATGATATT
CACATTTTTGTAACAAATTATATATGTAGTTATAAATTTTAACTATAGTATAACATATATTGTAA
TAAATATTTTTCTCCACTTTTCTGTTTCAAAAGTGATATTGACAAGTTTTATAATTATAATTTAT
ATTTTTTATAAAAAATTATCACATCAATTAATAAAATTCAACAGTTTTTTGTAATAAAGTATTTT
TGTACTTATATATTTTAATCATTATAAAAAATTATACTATCAGAAACATTTCTCCATATTTTTCA
GTGCAAAAAATGTTATATAGTAAC
Found at i:18116042 original size:78 final size:77
Alignment explanation
Indices: 18115823--18116059 Score: 323
Period size: 78 Copynumber: 3.1 Consensus size: 77
18115813 AGGTTGTTCT
* * * * *
18115823 TCAGCATTGTCTTCCTTCTGTCGTTCCGAAAAATTTACAG-TCTTTTTGTTTTGCCTCGTTTCCT
1 TCAGCATTGTCTTCTTTTTGTCGTTCCGAAACATTTGCAGTTCTTTTTGTTTTGCCTCGTTTCTT
18115887 TTCCCTTGATCC
66 TTCCCTTGATCC
* * **
18115899 TCAGCATTGTCTTCTTTTTTTTGGTTTGGAAACATTTGCAGTCTCTTTTTGTTTTGCCTCGTTTC
1 TCAGCATTGTCTTC-TTTTTGTCGTTCCGAAACATTTGCAGT-TCTTTTTGTTTTGCCTCGTTTC
*
18115964 TTTTCCCTTGATCT
64 TTTTCCCTTGATCC
* *
18115978 TCAGCATTGTCTTCTTTTTGTCGCTCCGAAACACTTGCAGTATCTTTTTGTTTTGCCTCGTTTCT
1 TCAGCATTGTCTTCTTTTTGTCGTTCCGAAACATTTGCAGT-TCTTTTTGTTTTGCCTCGTTTCT
*
18116043 TTTCCCTTAATCC
65 TTTCCCTTGATCC
18116056 TCAG
1 TCAG
18116060 TAGAGGTGAA
Statistics
Matches: 139, Mismatches: 19, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
76 14 0.10
77 18 0.13
78 59 0.42
79 48 0.35
ACGTcount: A:0.12, C:0.25, G:0.14, T:0.49
Consensus pattern (77 bp):
TCAGCATTGTCTTCTTTTTGTCGTTCCGAAACATTTGCAGTTCTTTTTGTTTTGCCTCGTTTCTT
TTCCCTTGATCC
Found at i:18116153 original size:13 final size:13
Alignment explanation
Indices: 18116135--18116159 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18116125 GATTGGATTT
18116135 TTTTAACCGGTTA
1 TTTTAACCGGTTA
18116148 TTTTAACCGGTT
1 TTTTAACCGGTT
18116160 TTGGAAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.16, G:0.16, T:0.48
Consensus pattern (13 bp):
TTTTAACCGGTTA
Found at i:18118548 original size:21 final size:21
Alignment explanation
Indices: 18118524--18118564 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
18118514 AGTTTATTTT
18118524 TAAACTTTATTTCAATTATCA
1 TAAACTTTATTTCAATTATCA
*
18118545 TAAACTTTGTTTCAATTATC
1 TAAACTTTATTTCAATTATC
18118565 GAACTTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.15, G:0.02, T:0.49
Consensus pattern (21 bp):
TAAACTTTATTTCAATTATCA
Found at i:18118602 original size:33 final size:33
Alignment explanation
Indices: 18118560--18118663 Score: 174
Period size: 33 Copynumber: 3.2 Consensus size: 33
18118550 TTTGTTTCAA
*
18118560 TTATCGAACTTGAAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
18118593 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
* *
18118626 TTATCGAACTTGGAAGTGTTTAAGTATTTCAA-
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
18118658 TTATCG
1 TTATCG
18118664 TAAACTTTGT
Statistics
Matches: 68, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 6 0.09
33 62 0.91
ACGTcount: A:0.31, C:0.08, G:0.17, T:0.44
Consensus pattern (33 bp):
TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
Found at i:18118877 original size:15 final size:17
Alignment explanation
Indices: 18118851--18118882 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
18118841 GTCTATAGGA
18118851 AAAAACCGGAT-CGGAT
1 AAAAACCGGATCCGGAT
18118867 AAAAACC-GATCCGGAT
1 AAAAACCGGATCCGGAT
18118883 CGGATTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.20
16 12 0.80
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (17 bp):
AAAAACCGGATCCGGAT
Found at i:18119614 original size:22 final size:23
Alignment explanation
Indices: 18119586--18119629 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
18119576 AAAGATAATT
*
18119586 TATGATAATTTATTTA-ACAAAC
1 TATGATAATTTATATAGACAAAC
18119608 TATGATAATTTATATAGACAAA
1 TATGATAATTTATATAGACAAA
18119630 ATAAGAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.39
Consensus pattern (23 bp):
TATGATAATTTATATAGACAAAC
Found at i:18119639 original size:22 final size:22
Alignment explanation
Indices: 18119589--18119639 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
18119579 GATAATTTAT
* * *
18119589 GATAATTTATTTAACAAACTAT
1 GATAATTTATATAACAAAATAA
18119611 GATAATTTATATAGACAAAATAA
1 GATAATTTATATA-ACAAAATAA
18119634 GA-AATT
1 GATAATT
18119640 AAATTTAGGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 16 0.64
23 9 0.36
ACGTcount: A:0.51, C:0.06, G:0.08, T:0.35
Consensus pattern (22 bp):
GATAATTTATATAACAAAATAA
Found at i:18132156 original size:21 final size:21
Alignment explanation
Indices: 18132131--18132200 Score: 122
Period size: 21 Copynumber: 3.3 Consensus size: 21
18132121 ACATTATAGG
*
18132131 TAATATGAAACAAAATATCGA
1 TAATACGAAACAAAATATCGA
*
18132152 TAATACGAAACAAAATATCAA
1 TAATACGAAACAAAATATCGA
18132173 TAATACGAAACAAAATATCGA
1 TAATACGAAACAAAATATCGA
18132194 TAATACG
1 TAATACG
18132201 GATATGTCCA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.57, C:0.13, G:0.09, T:0.21
Consensus pattern (21 bp):
TAATACGAAACAAAATATCGA
Found at i:18142473 original size:23 final size:21
Alignment explanation
Indices: 18142421--18142482 Score: 81
Period size: 23 Copynumber: 2.9 Consensus size: 21
18142411 TTTTGGTGCA
*
18142421 GAGGGAATCGA-TCCCCCCTT
1 GAGGGAACCGATTCCCCCCTT
*
18142441 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCCCTT
18142462 GAAGGGGAACCGATTCCCCCC
1 G-A-GGGAACCGATTCCCCCC
18142483 ACAAGGGAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.28
21 9 0.25
22 1 0.03
23 16 0.44
ACGTcount: A:0.21, C:0.35, G:0.26, T:0.18
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCCTT
Found at i:18142496 original size:21 final size:21
Alignment explanation
Indices: 18142422--18142502 Score: 65
Period size: 21 Copynumber: 3.8 Consensus size: 21
18142412 TTTGGTGCAG
* **
18142422 AGGGAATCGA-TCCCCCCTTG
1 AGGGAACCGATTCCCCCCTCA
* *
18142442 AGGGAACCGATTCCCCCTTTGA
1 AGGGAACCGATTCCCCC-CTCA
*
18142464 AGGGGAACCGATTCCCCCCACA
1 A-GGGAACCGATTCCCCCCTCA
* *
18142486 AGGGAATCGATACCCCC
1 AGGGAACCGATTCCCCC
18142503 ATGGGGTTCT
Statistics
Matches: 49, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
20 9 0.18
21 20 0.41
22 4 0.08
23 16 0.33
ACGTcount: A:0.25, C:0.36, G:0.23, T:0.16
Consensus pattern (21 bp):
AGGGAACCGATTCCCCCCTCA
Found at i:18146271 original size:41 final size:41
Alignment explanation
Indices: 18146228--18146639 Score: 281
Period size: 41 Copynumber: 10.1 Consensus size: 41
18146218 ACAAACGTCG
* * * *
18146228 CTAAATACTCATACTTTAGTGGGGTTTTTATATAAACACCG
1 CTAAAGACTCATACTTTAGTGGCGTTTTTATACAAACACCA
**
18146269 CTAAAGACT-ATACTTTAGTGGCGTTTTTATAC-AACGTCA
1 CTAAAGACTCATACTTTAGTGGCGTTTTTATACAAACACCA
* * * * * * *
18146308 CTATAGACTCGTACTTTAATGACTTTTTTATAAAAAAACCA
1 CTAAAGACTCATACTTTAGTGGCGTTTTTATACAAACACCA
* * * * * *
18146349 TTATAGACTCGTACTTTAGAGGCATTTTTATACAAACGCCA
1 CTAAAGACTCATACTTTAGTGGCGTTTTTATACAAACACCA
* * **
18146390 TTAAATACTTGTACTTTAGTGGCGTTTTTATACAAACGA-CA
1 CTAAAGACTCATACTTTAGTGGCGTTTTTATACAAAC-ACCA
* * * * * * * *
18146431 TTATAGACTCATACTTTAGCGGTGTTTGTATAAAAACGCCG
1 CTAAAGACTCATACTTTAGTGGCGTTTTTATACAAACACCA
* * * * **
18146472 CTAAAGACTCATATTTTAGTTGTGTTTGTATACAAACACTG
1 CTAAAGACTCATACTTTAGTGGCGTTTTTATACAAACACCA
* * *
18146513 CTAAAGACTCGTACTTTAGTGACGTTTTTATACAAATACCA
1 CTAAAGACTCATACTTTAGTGGCGTTTTTATACAAACACCA
* * * * *** * **
18146554 TTATAGATTCGTACTTTAGTGATATTTTTATTCAAACACTG
1 CTAAAGACTCATACTTTAGTGGCGTTTTTATACAAACACCA
* ** * ** *
18146595 CTATAGACTTGTAATTTAGTGGTATTTTTATACAAACGCCA
1 CTAAAGACTCATACTTTAGTGGCGTTTTTATACAAACACCA
18146636 CTAA
1 CTAA
18146640 TGATTGGTAG
Statistics
Matches: 292, Mismatches: 75, Indels: 8
0.78 0.20 0.02
Matches are distributed among these distances:
39 12 0.04
40 39 0.13
41 241 0.83
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (41 bp):
CTAAAGACTCATACTTTAGTGGCGTTTTTATACAAACACCA
Found at i:18146433 original size:82 final size:80
Alignment explanation
Indices: 18146207--18146639 Score: 323
Period size: 82 Copynumber: 5.3 Consensus size: 80
18146197 GGTTTATAGC
* * * * * * *
18146207 GGCGTTTTTGA-ACAAACGTCGCTAAATACTCATACTTTAGTGGGGTTTTTATATAAACACCGCT
1 GGCGTTTTT-ATACAAACGCCACTAAAGACTCGTACTTTAGTGGCGTTTTTATACAAACA-C-TT
* *
18146271 AAAGACT-ATACTTTAGT
63 ATAGACTCGTACTTTAGT
* * * * * * *
18146288 GGCGTTTTTATAC-AACGTCACTATAGACTCGTACTTTAATGACTTTTTTATAAAAAAACCATTA
1 GGCGTTTTTATACAAACGCCACTAAAGACTCGTACTTTAGTGGCGTTTTTATACAAACA-C-TTA
*
18146352 TAGACTCGTACTTTAGA
64 TAGACTCGTACTTTAGT
* * * *
18146369 GGCATTTTTATACAAACGCCATTAAATACTTGTACTTTAGTGGCGTTTTTATACAAACGACATTA
1 GGCGTTTTTATACAAACGCCACTAAAGACTCGTACTTTAGTGGCGTTTTTATACAAAC-AC-TTA
* *
18146434 TAGACTCATACTTTAGC
64 TAGACTCGTACTTTAGT
* * * * * * * * *
18146451 GGTGTTTGTATAAAAACGCCGCTAAAGACTCATATTTTAGTTGTGTTTGTATACAAACACTGCTA
1 GGCGTTTTTATACAAACGCCACTAAAGACTCGTACTTTAGTGGCGTTTTTATACAAACACT--TA
*
18146516 AAGACTCGTACTTTAGT
64 TAGACTCGTACTTTAGT
* ** * * * *** *
18146533 GACGTTTTTATACAAATACCATTATAGATTCGTACTTTAGTGATATTTTTATTCAAACACTGCTA
1 GGCGTTTTTATACAAACGCCACTAAAGACTCGTACTTTAGTGGCGTTTTTATACAAACACT--TA
* *
18146598 TAGACTTGTAATTTAGT
64 TAGACTCGTACTTTAGT
**
18146615 GGTATTTTTATACAAACGCCACTAA
1 GGCGTTTTTATACAAACGCCACTAA
18146640 TGATTGGTAG
Statistics
Matches: 275, Mismatches: 71, Indels: 11
0.77 0.20 0.03
Matches are distributed among these distances:
80 46 0.17
81 33 0.12
82 195 0.71
83 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.37
Consensus pattern (80 bp):
GGCGTTTTTATACAAACGCCACTAAAGACTCGTACTTTAGTGGCGTTTTTATACAAACACTTATA
GACTCGTACTTTAGT
Found at i:18146480 original size:123 final size:122
Alignment explanation
Indices: 18146226--18146639 Score: 393
Period size: 123 Copynumber: 3.4 Consensus size: 122
18146216 GAACAAACGT
* ** * * *
18146226 CGCTAAATACTCATACTTTAGTGGGGTTTTTATATAAACACCGCTAAAGAC-TATACTTTAGTGG
1 CGCTAAAGACTCATACTTTAGTGGTATTTTTATACAAACACCACTAAAGACTTGTACTTTAGTGG
* * * *
18146290 CGTTTTTATAC-AACGTCACTATAGACTCGTACTTTAATGACTTTTTTATAAAAAAAC
66 CGTTTTTATACAAACGACATTATAGACTCGTACTTTAGTGA-TTTTTTATAAAAACAC
** * * * * * * *
18146347 CATTATAGACTCGTACTTTAGAGGCATTTTTATACAAACGCCATTAAATACTTGTACTTTAGTGG
1 CGCTAAAGACTCATACTTTAGTGGTATTTTTATACAAACACCACTAAAGACTTGTACTTTAGTGG
* * * * *
18146412 CGTTTTTATACAAACGACATTATAGACTCATACTTTAGCGGTGTTTGTATAAAAACGC
66 CGTTTTTATACAAACGACATTATAGACTCGTACTTTAGTGAT-TTTTTATAAAAACAC
* * * * ** * *
18146470 CGCTAAAGACTCATATTTTAGTTGTGTTTGTATACAAACACTGCTAAAGACTCGTACTTTAGTGA
1 CGCTAAAGACTCATACTTTAGTGGTATTTTTATACAAACACCACTAAAGACTTGTACTTTAGTGG
* * **
18146535 CGTTTTTATACAAA-TACCATTATAGATTCGTACTTTAGTGATATTTTTATTCAAACAC
66 CGTTTTTATACAAACGA-CATTATAGACTCGTACTTTAGTGAT-TTTTTATAAAAACAC
* * ** * *
18146593 TGCTATAGACTTGTAATTTAGTGGTATTTTTATACAAACGCCACTAA
1 CGCTAAAGACTCATACTTTAGTGGTATTTTTATACAAACACCACTAA
18146640 TGATTGGTAG
Statistics
Matches: 228, Mismatches: 61, Indels: 6
0.77 0.21 0.02
Matches are distributed among these distances:
121 38 0.17
122 25 0.11
123 165 0.72
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (122 bp):
CGCTAAAGACTCATACTTTAGTGGTATTTTTATACAAACACCACTAAAGACTTGTACTTTAGTGG
CGTTTTTATACAAACGACATTATAGACTCGTACTTTAGTGATTTTTTATAAAAACAC
Found at i:18148996 original size:205 final size:212
Alignment explanation
Indices: 18148737--18149205 Score: 704
Period size: 205 Copynumber: 2.2 Consensus size: 212
18148727 TGAAATTACA
*
18148737 AATAAAAATTTTAATAAATTAAACAACACACATTGATGAGGGATCAAATCGAAATAATTTTAAAT
1 AATAAAAATTTAAATAAATTAAACAACACACATTGATGAGGGATCAAATCGAAATAATTTTAAAT
* * *
18148802 TGAGAGGTTGAAATTAATA-TAAAAAAGTACTACATTATACCCATTTAAAAAGTTATGGGCTAAT
66 TGAGAGGTTGAAATTAATACAAAAAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAAT
* * * *
18148866 TAAAAAAATAGAATTAAGTAATAAGTA-TGGATCAATTTCATATGCAAATAAAATTTGGAGGACT
131 T-AAAAAATAGAAATAAGTAATAAGTACAGG-TCAATTTCAGATGCAAATAAAATTTGGAGGACA
*
18148930 AAATTGAA-CAA-AT-A-T
194 AAATTGAATAAATATAATT
18148945 -ATAAAAATTTAAATAAATTAAAC-A-ACACATTGATGAGGGATCAAATCGAAATAATTTTAAAT
1 AATAAAAATTTAAATAAATTAAACAACACACATTGATGAGGGATCAAATCGAAATAATTTTAAAT
* *
18149007 TGTGATGTTGAAATTAATACAAAAAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAAT
66 TGAGAGGTTGAAATTAATACAAAAAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAAT
*
18149072 TTAAAAATAGAAATAAGTAATAAGTACAGGTCAATTTCAGATGCAAATAAAATTTGGAGGACAAA
131 TAAAAAATAGAAATAAGTAATAAGTACAGGTCAATTTCAGATGCAAATAAAATTTGGAGGACAAA
18149137 ATTGAATAAATATGAAATT
196 ATTGAATAAATAT--AATT
18149156 ACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAGGGATCAA
1 ---AATAAAAATTTAAATAAATTAAACAACACACATTGATGAGGGATCAA
18149206 TGTAAACTAT
Statistics
Matches: 235, Mismatches: 12, Indels: 19
0.88 0.05 0.07
Matches are distributed among these distances:
205 117 0.50
206 48 0.20
207 24 0.10
210 1 0.00
211 1 0.00
215 23 0.10
216 1 0.00
217 20 0.09
ACGTcount: A:0.50, C:0.09, G:0.13, T:0.29
Consensus pattern (212 bp):
AATAAAAATTTAAATAAATTAAACAACACACATTGATGAGGGATCAAATCGAAATAATTTTAAAT
TGAGAGGTTGAAATTAATACAAAAAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAAT
TAAAAAATAGAAATAAGTAATAAGTACAGGTCAATTTCAGATGCAAATAAAATTTGGAGGACAAA
ATTGAATAAATATAATT
Found at i:18149227 original size:2 final size:2
Alignment explanation
Indices: 18149222--18149299 Score: 52
Period size: 2 Copynumber: 38.0 Consensus size: 2
18149212 CTATATAGTT
* * * *
18149222 TA TA TA TA AA GTA TA TG TA T- TA TA TA TA TA AA CTA TA TA GTT
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA
* *
18149264 TA TA TA TA TA TA TA TA T- TA TG TA TA AA CTA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
18149300 CCATGTATAA
Statistics
Matches: 58, Mismatches: 12, Indels: 12
0.71 0.15 0.15
Matches are distributed among these distances:
1 2 0.03
2 52 0.90
3 4 0.07
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (2 bp):
TA
Found at i:18149250 original size:22 final size:22
Alignment explanation
Indices: 18149208--18149273 Score: 93
Period size: 22 Copynumber: 3.1 Consensus size: 22
18149198 GGGATCAATG
18149208 TAAACTATATAG-TT-TATATA
1 TAAACTATATAGTTTATATATA
*
18149228 TAAAGTATAT-GTATTATATATA
1 TAAACTATATAGT-TTATATATA
18149250 TAAACTATATAGTTTATATATA
1 TAAACTATATAGTTTATATATA
18149272 TA
1 TA
18149274 TATATATTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.03
20 9 0.22
21 2 0.05
22 26 0.65
23 2 0.05
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (22 bp):
TAAACTATATAGTTTATATATA
Found at i:18149381 original size:11 final size:11
Alignment explanation
Indices: 18149367--18149404 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
18149357 ACTAAATAGT
18149367 TTATATATAAA
1 TTATATATAAA
*
18149378 TTATATATGAA
1 TTATATATAAA
18149389 TTATATATAAA
1 TTATATATAAA
*
18149400 CTATA
1 TTATA
18149405 CAATTTATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (11 bp):
TTATATATAAA
Found at i:18149412 original size:20 final size:20
Alignment explanation
Indices: 18149208--18149414 Score: 118
Period size: 20 Copynumber: 9.9 Consensus size: 20
18149198 GGGATCAATG
*
18149208 TAAACTATATAGTTTATATA
1 TAAACTATATAATTTATATA
* *
18149228 TAAAGTATATGTATTATATATA
1 TAAACTATAT-AATT-TATATA
*
18149250 TAAACTATATAGTTTATATA
1 TAAACTATATAATTTATATA
* *
18149270 TATA-TATAT-A-TTATGTA
1 TAAACTATATAATTTATATA
*
18149287 TAAACTATATATACCATGTATAAACTA
1 TAAAC--TATATA--AT-T-TATA-TA
*
18149314 TAATACTATATAGTTTATATA
1 TAA-ACTATATAATTTATATA
* *
18149335 TGAACTAT-TGAA-CTATATA
1 TAAACTATAT-AATTTATATA
* * *
18149354 GAAACTAAATAGTTTATATA
1 TAAACTATATAATTTATATA
* *
18149374 TAAATTATATATGAATTATATA
1 TAAACTATATA--ATTTATATA
*
18149396 TAAACTATACAATTTATAT
1 TAAACTATATAATTTATAT
18149415 TTATATATTA
Statistics
Matches: 139, Mismatches: 30, Indels: 36
0.68 0.15 0.18
Matches are distributed among these distances:
17 9 0.06
19 18 0.13
20 51 0.37
21 8 0.06
22 34 0.24
23 2 0.01
24 1 0.01
25 1 0.01
26 8 0.06
27 5 0.04
28 2 0.01
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.43
Consensus pattern (20 bp):
TAAACTATATAATTTATATA
Found at i:18149412 original size:42 final size:43
Alignment explanation
Indices: 18149343--18149441 Score: 103
Period size: 42 Copynumber: 2.3 Consensus size: 43
18149333 TATGAACTAT
* * * *
18149343 TGAACTATATAGAAACTAAATAGTTTATA-TATAAATTATATA
1 TGAATTATATATAAACTAAACAATTTATATTATAAATTATATA
* * *
18149385 TGAATTATATATAAACTATACAATTTATATTTATATATTATGTA
1 TGAATTATATATAAACTAAACAATTTATA-TTATAAATTATATA
*
18149429 T-AATTATAAATAA
1 TGAATTATATATAA
18149442 TATATATTGT
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
42 24 0.51
43 11 0.23
44 12 0.26
ACGTcount: A:0.48, C:0.04, G:0.05, T:0.42
Consensus pattern (43 bp):
TGAATTATATATAAACTAAACAATTTATATTATAAATTATATA
Found at i:18149430 original size:17 final size:17
Alignment explanation
Indices: 18149410--18149461 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
18149400 CTATACAATT
* *
18149410 TATATTTATATATTATG
1 TATATTTATAAATTATA
* *
18149427 TATAATTATAAATAATA
1 TATATTTATAAATTATA
18149444 TATATTGTATAAATTATA
1 TATATT-TATAAATTATA
18149462 CAGTTTATTA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
17 18 0.64
18 10 0.36
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (17 bp):
TATATTTATAAATTATA
Found at i:18149483 original size:22 final size:25
Alignment explanation
Indices: 18149441--18149501 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 25
18149431 ATTATAAATA
** *
18149441 ATATATATTGTATAAATTATACAGT
1 ATATATATAATATAAACTATACAGT
*
18149466 -T-TAT-TAATATAAACTATATAGT
1 ATATATATAATATAAACTATACAGT
18149488 ATATATATAATATA
1 ATATATATAATATA
18149502 TATGAGTTAG
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
22 14 0.48
23 4 0.14
24 4 0.14
25 7 0.24
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.44
Consensus pattern (25 bp):
ATATATATAATATAAACTATACAGT
Found at i:18149553 original size:14 final size:14
Alignment explanation
Indices: 18149514--18149559 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
18149504 TGAGTTAGGG
* *
18149514 TTTAGGGTTTAGGA
1 TTTAAGGTTTATGA
*
18149528 TTCAAGGTTTATGA
1 TTTAAGGTTTATGA
*
18149542 TTTAAGGTTTATGG
1 TTTAAGGTTTATGA
18149556 TTTA
1 TTTA
18149560 GAAATATGTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.24, C:0.02, G:0.26, T:0.48
Consensus pattern (14 bp):
TTTAAGGTTTATGA
Found at i:18149580 original size:2 final size:2
Alignment explanation
Indices: 18149573--18149661 Score: 60
Period size: 2 Copynumber: 44.0 Consensus size: 2
18149563 ATATGTAGTT
* *
18149573 TA TA TA TA TA T- TA TA AA CTA TA T- TA TA TA TA TA AA CTA -A CTA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA -TA
* * *
18149615 TA TA GTT TA TA TA TA TA TA TA TA TA TA T- TA TG TA TA AA CTA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
18149658 TA TA
1 TA TA
18149662 CCATGTATAA
Statistics
Matches: 68, Mismatches: 10, Indels: 18
0.71 0.10 0.19
Matches are distributed among these distances:
1 4 0.06
2 59 0.87
3 5 0.07
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.46
Consensus pattern (2 bp):
TA
Found at i:18149791 original size:17 final size:17
Alignment explanation
Indices: 18149771--18149824 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
18149761 CTATACAATT
* *
18149771 TATATTTATATATTATG
1 TATATTTATAAATTATA
* *
18149788 TATAATTATAAATAATA
1 TATATTTATAAATTATA
18149805 TATATTGTATAAATTATA
1 TATATT-TATAAATTATA
18149823 TA
1 TA
18149825 GTTTATTAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 18 0.60
18 12 0.40
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (17 bp):
TATATTTATAAATTATA
Found at i:18149844 original size:22 final size:23
Alignment explanation
Indices: 18149803--18149998 Score: 76
Period size: 26 Copynumber: 7.7 Consensus size: 23
18149793 TTATAAATAA
*
18149803 TATATATTGTATAAATTATATAGTT
1 TATATA-TATATAAA-TATATAGTT
18149828 TAT-TA-ATATAAAGTATATAGTT
1 TATATATATATAAA-TATATAGTT
18149850 TATATATATATAGAATATAT-GTGT
1 TATATATATATA-AATATATAGT-T
* * *
18149874 TAGGGTTTAGGGTTTATAAATATATTGTTT
1 TA---TATA---TATATAAATATATAG-TT
*
18149904 ATATATATAATATAAACTATATAATAT
1 -TATATAT-ATATAAA-TATATAGT-T
18149931 ATATATATATATAAAGTATAT-GTATT
1 -TATATATATATAAA-TATATAG--TT
* * *
18149957 GTATATATAAACTAACTATATGGTT
1 -TATATATATA-TAAATATATAGTT
* *
18149982 TTTATATATATATATAT
1 TATATATATATAAATAT
18149999 TATGTATAAA
Statistics
Matches: 134, Mismatches: 17, Indels: 42
0.69 0.09 0.22
Matches are distributed among these distances:
22 18 0.13
23 9 0.07
24 23 0.17
25 8 0.06
26 34 0.25
27 22 0.16
28 3 0.02
29 7 0.05
30 7 0.05
31 3 0.02
ACGTcount: A:0.42, C:0.02, G:0.10, T:0.47
Consensus pattern (23 bp):
TATATATATATAAATATATAGTT
Found at i:18149908 original size:2 final size:2
Alignment explanation
Indices: 18149903--18149965 Score: 51
Period size: 2 Copynumber: 32.0 Consensus size: 2
18149893 ATATATTGTT
*
18149903 TA TA TA TA TA -A TA TA AA CTA TA TA -A 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
* * *
18149944 AA GTA TA TG TA T- TG TA TA TA TA
1 TA -TA TA TA TA TA TA TA TA TA TA
18149966 AACTAACTAT
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
1 3 0.06
2 44 0.90
3 2 0.04
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (2 bp):
TA
Found at i:18149961 original size:26 final size:25
Alignment explanation
Indices: 18149888--18149995 Score: 94
Period size: 26 Copynumber: 4.2 Consensus size: 25
18149878 GTTTAGGGTT
18149888 TATAAA-TATATTGTTTATATATATAA
1 TATAAACTATA-TGTTTATATATAT-A
* *
18149914 TATAAACTATATAATATATATATATA
1 TATAAACTATAT-GTTTATATATATA
* *
18149940 TATAAAGTATATGTATTGTATATATA
1 TATAAACTATATGT-TTATATATATA
* *
18149966 AACT-AACTATATGGTTTTTATATATA
1 TA-TAAACTATAT-GTTTATATATATA
18149992 TATA
1 TATA
18149996 TATTATGTAT
Statistics
Matches: 66, Mismatches: 10, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
25 2 0.03
26 47 0.71
27 17 0.26
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (25 bp):
TATAAACTATATGTTTATATATATA
Found at i:18150015 original size:20 final size:20
Alignment explanation
Indices: 18149990--18150037 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
18149980 TTTTTATATA
**
18149990 TATATATATTATGTATAAAC
1 TATATATACCATGTATAAAC
18150010 TATATATACCATGTATAAAC
1 TATATATACCATGTATAAAC
18150030 TATA-ATAC
1 TATATATAC
18150038 TATATTGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 4 0.15
20 22 0.85
ACGTcount: A:0.46, C:0.10, G:0.04, T:0.40
Consensus pattern (20 bp):
TATATATACCATGTATAAAC
Found at i:18150146 original size:17 final size:17
Alignment explanation
Indices: 18150126--18150179 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
18150116 CTATACAATT
* *
18150126 TATATTTATATATTATG
1 TATATTTATAAATTATA
* *
18150143 TATAATTATAAATAATA
1 TATATTTATAAATTATA
18150160 TATATTGTATAAATTATA
1 TATATT-TATAAATTATA
18150178 TA
1 TA
18150180 GTTTATTAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 18 0.60
18 12 0.40
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (17 bp):
TATATTTATAAATTATA
Found at i:18150233 original size:7 final size:7
Alignment explanation
Indices: 18150223--18150249 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
18150213 TAGTATATAT
18150223 GGTTTAG
1 GGTTTAG
18150230 GGTTTAG
1 GGTTTAG
18150237 GGTTTAG
1 GGTTTAG
18150244 GGTTTA
1 GGTTTA
18150250 TATTTGTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.41, T:0.44
Consensus pattern (7 bp):
GGTTTAG
Found at i:18150487 original size:60 final size:61
Alignment explanation
Indices: 18150421--18150556 Score: 188
Period size: 61 Copynumber: 2.2 Consensus size: 61
18150411 TATAAAGATC
* *
18150421 AAATTGAACAAATTTTAAATATGAAG-TTTAATTAATAAACTGT-AA-TATTAAATTTGGACT
1 AAATTGAACAAATTTGAAATATGAAGCTTAAATTAATAAA-T-TAAATTATTAAATTTGGACT
* * *
18150481 AAATTGAAAAAAGTTGAAATATGAAGCTTAAATTAATATATTAAATTATTAAATTTGGACT
1 AAATTGAACAAATTTGAAATATGAAGCTTAAATTAATAAATTAAATTATTAAATTTGGACT
18150542 AAATTGAACAAATTT
1 AAATTGAACAAATTT
18150557 AAAACTAGAA
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
59 1 0.02
60 26 0.39
61 39 0.59
ACGTcount: A:0.49, C:0.04, G:0.10, T:0.37
Consensus pattern (61 bp):
AAATTGAACAAATTTGAAATATGAAGCTTAAATTAATAAATTAAATTATTAAATTTGGACT
Found at i:18150576 original size:61 final size:59
Alignment explanation
Indices: 18150421--18150577 Score: 176
Period size: 61 Copynumber: 2.6 Consensus size: 59
18150411 TATAAAGATC
*
18150421 AAATTGAACAAATTTTAAATATGAAGTTTAATTAATAAACTGTAATATTAAATTTGGACT
1 AAATTGAACAAATTTAAAATATGAAG-TTAATTAATAAACTGTAATATTAAATTTGGACT
* * * *
18150481 AAATTGAAAAAAGTTGAAATATGAAGCTTAAATTAATATA-T-TAAATTATTAAATTTGGACT
1 AAATTGAACAAATTTAAAATATGAAG-TT-AATTAATAAACTGT-AA-TATTAAATTTGGACT
18150542 AAATTGAACAAATTTAAAACTA-GAAGATGTAATTAA
1 AAATTGAACAAATTTAAAA-TATGAAG-T-TAATTAA
18150578 ATCAGCCCCA
Statistics
Matches: 83, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
59 1 0.01
60 28 0.34
61 51 0.61
62 3 0.04
ACGTcount: A:0.50, C:0.04, G:0.11, T:0.35
Consensus pattern (59 bp):
AAATTGAACAAATTTAAAATATGAAGTTAATTAATAAACTGTAATATTAAATTTGGACT
Found at i:18150931 original size:20 final size:20
Alignment explanation
Indices: 18150903--18150950 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
18150893 CATCGCCCTG
*
18150903 CTCGTGCACGCCCGACATCA
1 CTCGAGCACGCCCGACATCA
18150923 CTCGAGCACGCCCGACATCA
1 CTCGAGCACGCCCGACATCA
18150943 CTCGAGCA
1 CTCGAGCA
18150951 ACCCAATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.23, C:0.44, G:0.21, T:0.12
Consensus pattern (20 bp):
CTCGAGCACGCCCGACATCA
Found at i:18151450 original size:2 final size:2
Alignment explanation
Indices: 18151443--18151475 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
18151433 ATTGTTGTTG
18151443 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
18151476 CACATATGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18154628 original size:16 final size:16
Alignment explanation
Indices: 18154609--18154647 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
18154599 TGAGTCAATT
*
18154609 ACAGGTCAGGTTCATA
1 ACAGGTCAGGTTCAAA
*
18154625 ACAGGTCAGGTTGAAA
1 ACAGGTCAGGTTCAAA
18154641 ACAGGTC
1 ACAGGTC
18154648 GGGTAATACC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.33, C:0.18, G:0.28, T:0.21
Consensus pattern (16 bp):
ACAGGTCAGGTTCAAA
Found at i:18155383 original size:21 final size:20
Alignment explanation
Indices: 18155297--18155454 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
18155287 AAATGACCAA
**
18155297 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
18155316 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
18155336 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
18155356 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
18155377 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
18155398 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
18155418 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
18155439 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
18155455 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:18155483 original size:20 final size:20
Alignment explanation
Indices: 18155421--18155615 Score: 205
Period size: 20 Copynumber: 9.7 Consensus size: 20
18155411 CGATTTTCCA
* ** *
18155421 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
18155441 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
18155461 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
18155481 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
18155501 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
18155521 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
18155541 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
18155561 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
18155581 AAAAATCGCAACGCGTATCCGT
1 --AAATCGCAACGCGTATCCGT
*
18155603 AAATCTCAACGCG
1 AAATCGCAACGCG
18155616 ATATTTAAAG
Statistics
Matches: 145, Mismatches: 24, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
19 2 0.01
20 125 0.86
21 2 0.01
22 15 0.10
23 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:18155505 original size:60 final size:60
Alignment explanation
Indices: 18155421--18155615 Score: 237
Period size: 60 Copynumber: 3.2 Consensus size: 60
18155411 CGATTTTCCA
* ** * *
18155421 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
18155481 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
18155541 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT--AAATCGCAACGCGTATCCGT
*
18155603 AAATCTCAACGCG
1 AAATCGCAACGCG
18155616 ATATTTAAAG
Statistics
Matches: 111, Mismatches: 22, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
60 81 0.73
62 30 0.27
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:18156037 original size:33 final size:33
Alignment explanation
Indices: 18155998--18156068 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
18155988 TTCACTTAGA
*
18155998 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
18156031 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
18156064 TTTCA
1 TTTCA
18156069 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:18156192 original size:20 final size:20
Alignment explanation
Indices: 18156148--18156243 Score: 122
Period size: 21 Copynumber: 4.8 Consensus size: 20
18156138 TGCAGAAGAG
*
18156148 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-GAATGAAAA
***
18156169 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAGAATGAAAA
18156189 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAG-AATGAAAA
*
18156210 TCGCAACGCGA-AATGAAAA
1 TCGCAACGAGAGAATGAAAA
18156229 TCGCAACGAGAGAAT
1 TCGCAACGAGAGAAT
18156244 CGCAACGCGA
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
19 18 0.28
20 20 0.31
21 26 0.41
ACGTcount: A:0.46, C:0.18, G:0.24, T:0.12
Consensus pattern (20 bp):
TCGCAACGAGAGAATGAAAA
Found at i:18156205 original size:41 final size:40
Alignment explanation
Indices: 18156146--18156242 Score: 140
Period size: 41 Copynumber: 2.4 Consensus size: 40
18156136 TTTGCAGAAG
* *
18156146 AGTCGCAACGAGATAAATGAAAATCGCAACGAGAGAATGAC
1 AGTCGCAACGAGAGAAATGAAAATCGCAACGAGA-AATGAA
* *
18156187 TGTCGCAACGAGAGAAATGAAAATCGCAACGCGAAATGAA
1 AGTCGCAACGAGAGAAATGAAAATCGCAACGAGAAATGAA
*
18156227 AATCGCAACGAGAGAA
1 AGTCGCAACGAGAGAA
18156243 TCGCAACGCG
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
40 19 0.38
41 31 0.62
ACGTcount: A:0.46, C:0.18, G:0.25, T:0.11
Consensus pattern (40 bp):
AGTCGCAACGAGAGAAATGAAAATCGCAACGAGAAATGAA
Found at i:18156284 original size:19 final size:19
Alignment explanation
Indices: 18156262--18156315 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
18156252 GAAACCAAAA
* *
18156262 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTCTCATT
18156281 TCGCGTTGCGATTCTCATT
1 TCGCGTTGCGATTCTCATT
18156300 TCGCGTTGCGATTCTC
1 TCGCGTTGCGATTCTC
18156316 TCGTTGCGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.11, C:0.26, G:0.20, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTCTCATT
Found at i:18156335 original size:21 final size:21
Alignment explanation
Indices: 18156311--18156375 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
18156301 CGCGTTGCGA
18156311 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
18156332 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
18156352 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
18156373 TTC
1 TTC
18156376 AACCAAAAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.11, C:0.26, G:0.15, T:0.48
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:18158412 original size:14 final size:14
Alignment explanation
Indices: 18158393--18158428 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
18158383 ATTGTTTAAT
18158393 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
18158407 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
18158421 TGATTTGT
1 TGATTTGT
18158429 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:18158551 original size:19 final size:19
Alignment explanation
Indices: 18158535--18158632 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
18158525 AAAAATGACT
18158535 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
18158554 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
18158573 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
18158587 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
18158606 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
18158626 ATCGCAA
1 ATCGCAA
18158633 CGAGAGAATC
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 39 0.55
20 16 0.23
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:18158664 original size:53 final size:53
Alignment explanation
Indices: 18158535--18158651 Score: 227
Period size: 53 Copynumber: 2.2 Consensus size: 53
18158525 AAAAATGACT
18158535 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
18158587 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
18158640 ATCGCAATGCGA
1 ATCGCAATGCGA
18158652 TTTTAATTTC
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 29 0.45
53 35 0.55
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.14
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:18158669 original size:19 final size:19
Alignment explanation
Indices: 18158641--18158843 Score: 194
Period size: 19 Copynumber: 11.7 Consensus size: 19
18158631 AACGAGAGAA
* *
18158641 TCGCAATGCGATTTTAATT
1 TCGCATTGCGATTTTCATT
18158660 TCGCATTGCGA--TTC---
1 TCGCATTGCGATTTTCATT
*
18158674 TCTCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
18158693 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
18158712 TTGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
18158728 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
18158745 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
18158764 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
18158780 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
18158797 TCCGCATTGCGATTTTCA--
1 T-CGCATTGCGATTTTCATT
*
18158815 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
18158831 TCGCATTGCGATT
1 TCGCATTGCGATT
18158844 CTCTCGTTGC
Statistics
Matches: 151, Mismatches: 12, Indels: 42
0.74 0.06 0.20
Matches are distributed among these distances:
14 33 0.22
16 18 0.12
17 15 0.10
18 3 0.02
19 70 0.46
20 12 0.08
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:18158704 original size:52 final size:52
Alignment explanation
Indices: 18158641--18158815 Score: 305
Period size: 52 Copynumber: 3.3 Consensus size: 52
18158631 AACGAGAGAA
* * *
18158641 TCGCAATGCGATTTTAATTTCGCATTGCGATTCTCTCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
*
18158693 TCGCATTGCGATTTTCATTTTGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
18158745 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
18158797 TCCGCATTGCGATTTTCAT
1 T-CGCATTGCGATTTTCAT
18158816 GTTGGGATTT
Statistics
Matches: 117, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
52 100 0.85
53 17 0.15
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.46
Consensus pattern (52 bp):
TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:18158865 original size:33 final size:33
Alignment explanation
Indices: 18158647--18158857 Score: 214
Period size: 33 Copynumber: 6.2 Consensus size: 33
18158637 AGAATCGCAA
* *
18158647 TGCGATTTTAATTTCGCATTGCGATTCTCTCAT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
* *
18158680 TGCGATTTTCATTTCGCATTGCGATTTTCAT-TT
1 TGCGATTTTCATTTCGCATTGCGATTCTC-TCGT
* * * *
18158713 TGC-A-TTGCGATTCTCTCGTTGCGATTTTCATTTCGCAT
1 TGCGATTTTC-ATT-TCGCATTGCGA--TTC-TCTCG--T
18158751 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
*
18158784 TGCGATTTTCATTTCCGCATTGCGATTTTCAT-GT
1 TGCGATTTTCATTT-CGCATTGCGATTCTC-TCGT
*
18158818 TGGGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
18158851 TGCGATT
1 TGCGATT
18158858 GTAATTTCCG
Statistics
Matches: 147, Mismatches: 17, Indels: 28
0.77 0.09 0.15
Matches are distributed among these distances:
31 3 0.02
32 5 0.03
33 77 0.52
34 30 0.20
35 8 0.05
36 4 0.03
38 13 0.09
39 4 0.03
40 3 0.02
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.46
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
Found at i:18161356 original size:24 final size:24
Alignment explanation
Indices: 18161322--18161368 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
18161312 CTGAAACATC
18161322 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
18161346 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
18161369 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:18162078 original size:20 final size:20
Alignment explanation
Indices: 18162050--18162141 Score: 121
Period size: 20 Copynumber: 4.6 Consensus size: 20
18162040 AAATTTCAGT
* * *
18162050 GTTGTGATTTACAAATTCTC
1 GTTGCGATTTACAGATTATC
*
18162070 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACAGATTATC
*
18162090 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACAGATTATC
**
18162110 GTTGCGATTTATGGATTATC
1 GTTGCGATTTACAGATTATC
18162130 GTTGCGATTTAC
1 GTTGCGATTTAC
18162142 GGATACGCGT
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 62 1.00
ACGTcount: A:0.21, C:0.15, G:0.22, T:0.42
Consensus pattern (20 bp):
GTTGCGATTTACAGATTATC
Found at i:18162250 original size:20 final size:20
Alignment explanation
Indices: 18162069--18162279 Score: 212
Period size: 20 Copynumber: 10.6 Consensus size: 20
18162059 TACAAATTCT
*
18162069 CGTTGCGATTTACGGATTA-T
1 CGTTGCGATTTACGGA-TACG
* * *
18162089 CGTTGCGATTTACAGATTCT
1 CGTTGCGATTTACGGATACG
* *
18162109 CGTTGCGATTTATGGATTA-T
1 CGTTGCGATTTACGGA-TACG
18162129 CGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACG
*
18162149 CGTTGCGATATACGGATACG
1 CGTTGCGATTTACGGATACG
* * **
18162169 CATTGCAATTTACCCATACG
1 CGTTGCGATTTACGGATACG
*
18162189 CGTTGCGATTTACGGATACA
1 CGTTGCGATTTACGGATACG
18162209 CGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACG
* *
18162229 CGTTGCGATTTATGTG-TTCG
1 CGTTGCGATTTACG-GATACG
* ** *
18162249 CGTTGCGATTTTCATATTCG
1 CGTTGCGATTTACGGATACG
18162269 CGTTGCGATTT
1 CGTTGCGATTT
18162280 TGGAAAATCG
Statistics
Matches: 161, Mismatches: 25, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
19 3 0.02
20 156 0.97
21 2 0.01
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.36
Consensus pattern (20 bp):
CGTTGCGATTTACGGATACG
Found at i:18162296 original size:21 final size:21
Alignment explanation
Indices: 18162272--18162327 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
18162262 ATATTCGCGT
18162272 TGCGATTTTGGAAAATCGCAA
1 TGCGATTTTGGAAAATCGCAA
* **
18162293 TGCGATTTT-TAAGAATCGCGT
1 TGCGATTTTGGAA-AATCGCAA
18162314 TGCGATTTTGGAAA
1 TGCGATTTTGGAAA
18162328 CTGATTTGCG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 2 0.07
21 25 0.86
22 2 0.07
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (21 bp):
TGCGATTTTGGAAAATCGCAA
Found at i:18169221 original size:18 final size:18
Alignment explanation
Indices: 18169178--18169215 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
18169168 TCTTAAAACC
18169178 GTTGATGCGAAGTTTATA
1 GTTGATGCGAAGTTTATA
*
18169196 GTTGATGCGATGTTTATA
1 GTTGATGCGAAGTTTATA
18169214 GT
1 GT
18169216 GTATGCTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.05, G:0.29, T:0.42
Consensus pattern (18 bp):
GTTGATGCGAAGTTTATA
Found at i:18174032 original size:32 final size:31
Alignment explanation
Indices: 18173992--18174091 Score: 103
Period size: 31 Copynumber: 3.2 Consensus size: 31
18173982 GTCGAGGGTT
*
18173992 TACCTATGTTCTACGGAACATATGGACAGAA
1 TACCTATGTTCTACGGAACATATGGACAGTA
* * *
18174023 TTACCTATG-TCTTTCGGGACATATGGATAGTA
1 -TACCTATGTTC-TACGGAACATATGGACAGTA
* * * *
18174055 TACCTATTTTCTAAGGAATAAATGGACAGTA
1 TACCTATGTTCTACGGAACATATGGACAGTA
18174086 TACCTA
1 TACCTA
18174092 GGTTTTTGGG
Statistics
Matches: 55, Mismatches: 11, Indels: 5
0.77 0.15 0.07
Matches are distributed among these distances:
31 29 0.53
32 26 0.47
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (31 bp):
TACCTATGTTCTACGGAACATATGGACAGTA
Found at i:18178746 original size:32 final size:31
Alignment explanation
Indices: 18178706--18178805 Score: 112
Period size: 31 Copynumber: 3.2 Consensus size: 31
18178696 GTCGAGGGTT
*
18178706 TACCTATGTTCTACGGAACATATGGACAGAA
1 TACCTATGTTCTACGGAACATATGGACAGTA
* * *
18178737 TTACCTATG-TCTTTCGGGACATATGGATAGTA
1 -TACCTATGTTC-TACGGAACATATGGACAGTA
* * *
18178769 TACCCATGTTCTAAGGAATATATGGACAGTA
1 TACCTATGTTCTACGGAACATATGGACAGTA
18178800 TACCTA
1 TACCTA
18178806 GGTTTTTGGG
Statistics
Matches: 55, Mismatches: 11, Indels: 5
0.77 0.15 0.07
Matches are distributed among these distances:
31 29 0.53
32 26 0.47
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (31 bp):
TACCTATGTTCTACGGAACATATGGACAGTA
Found at i:18184327 original size:3 final size:3
Alignment explanation
Indices: 18184317--18184348 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
18184307 AAAGTATTAT
18184317 TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
18184349 ACCCCAGACA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:18186161 original size:16 final size:17
Alignment explanation
Indices: 18186122--18186165 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
18186112 TTGTAAGAAG
18186122 AGAAAAATGACATTTTC
1 AGAAAAATGACATTTTC
*
18186139 AGAAAAATGACATTTTT
1 AGAAAAATGACATTTTC
18186156 AGAAAAATGA
1 AGAAAAATGA
18186166 AATAAGGATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.52, C:0.07, G:0.14, T:0.27
Consensus pattern (17 bp):
AGAAAAATGACATTTTC
Found at i:18189103 original size:189 final size:186
Alignment explanation
Indices: 18188736--18189119 Score: 644
Period size: 189 Copynumber: 2.0 Consensus size: 186
18188726 CTGAAAAATG
*
18188736 ACCCAAAGGATTTAAACATTATGCTCGAAAGACTTACAGATGACCCGAAGGATTTACAAATTCAT
1 ACCCAAAGGATTTAAACATCATGCTCGAAAGACTTACAGATGACCCGAAGGATTTACAAATTCAT
*
18188801 GATAAATAATTTACTGAGTAAGACTTCTTACTTTTAAAAAAATTGATTTTCTAGAACATTAAATG
66 GAGAAATAATTTACTGAGTAAGACTTCTTACTTTTAAAAAAATTGATTTTCTAGAACATTAAATG
18188866 AGAAACTTTAAAAATCGCTATCTCATTGTTATGCGAAAATCATATGTAAACATCCT
131 AGAAACTTTAAAAATCGCTATCTCATTGTTATGCGAAAATCATATGTAAACATCCT
*
18188922 ACCCAAAGGATTTAAACATCATGCTCGAAAGACTTACAGATGACCCGAAGGATTTACAAATTCGT
1 ACCCAAAGGATTTAAACATCATGCTCGAAAGACTTACAGATGACCCGAAGGATTTACAAATTCAT
* * * *
18188987 GGGAAATAATTTACTGGGTAAGAAACTTTCTTACTTTTCAAAAATTTGATTTTCTAGAACATTAA
66 GAGAAATAATTTACTGAGTAAG--AC-TTCTTACTTTTAAAAAAATTGATTTTCTAGAACATTAA
* *
18189052 ATGAGAAACTTTGAAAATCGCTATCTCATT-TTCATGTGAAAATCATATGTAAACATCCT
128 ATGAGAAACTTTAAAAATCGCTATCTCATTGTT-ATGCGAAAATCATATGTAAACATCCT
18189111 ACCCAAAGG
1 ACCCAAAGG
18189120 TATGACAGAT
Statistics
Matches: 185, Mismatches: 9, Indels: 5
0.93 0.05 0.03
Matches are distributed among these distances:
186 82 0.44
188 4 0.02
189 99 0.54
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (186 bp):
ACCCAAAGGATTTAAACATCATGCTCGAAAGACTTACAGATGACCCGAAGGATTTACAAATTCAT
GAGAAATAATTTACTGAGTAAGACTTCTTACTTTTAAAAAAATTGATTTTCTAGAACATTAAATG
AGAAACTTTAAAAATCGCTATCTCATTGTTATGCGAAAATCATATGTAAACATCCT
Found at i:18189200 original size:41 final size:41
Alignment explanation
Indices: 18189142--18189227 Score: 109
Period size: 41 Copynumber: 2.1 Consensus size: 41
18189132 CCCTAAGGAC
* * *
18189142 TTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAAAGA
1 TTTAACATCATGCTCGAAAGACTGACAGATAACCCGAAAGA
* * * *
18189183 TTTAACATCATGCTCGAAATACTTACAGATAACTCGAAGGA
1 TTTAACATCATGCTCGAAAGACTGACAGATAACCCGAAAGA
18189224 TTTA
1 TTTA
18189228 CAAATTCATG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (41 bp):
TTTAACATCATGCTCGAAAGACTGACAGATAACCCGAAAGA
Found at i:18189877 original size:22 final size:22
Alignment explanation
Indices: 18189852--18189898 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
18189842 TAAAGCTTTT
18189852 ATCTTTGAAAAGAGAATCTATC
1 ATCTTTGAAAAGAGAATCTATC
*
18189874 ATCTTTGGAAAGAGAATCTATC
1 ATCTTTGAAAAGAGAATCTATC
18189896 ATC
1 ATC
18189899 CTTGCAGTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (22 bp):
ATCTTTGAAAAGAGAATCTATC
Found at i:18199373 original size:12 final size:11
Alignment explanation
Indices: 18199356--18199430 Score: 73
Period size: 12 Copynumber: 6.5 Consensus size: 11
18199346 CTTAATATGC
18199356 TTTCTTTCTTCT
1 TTTCTTTCTT-T
18199368 TTTCTTTCTTT
1 TTTCTTTCTTT
*
18199379 TTTCTCTTATTT
1 TTTCT-TTCTTT
18199391 TTTCTTCTTCTTTT
1 TTTC-T-TTC-TTT
18199405 TTTCTTT-TTCT
1 TTTCTTTCTT-T
18199416 TTT-TTTCTTT
1 TTTCTTTCTTT
18199426 TTTCT
1 TTTCT
18199431 GTCCTCGACT
Statistics
Matches: 55, Mismatches: 2, Indels: 13
0.79 0.03 0.19
Matches are distributed among these distances:
10 9 0.16
11 13 0.24
12 21 0.38
13 5 0.09
14 7 0.13
ACGTcount: A:0.01, C:0.19, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTCTTTCTTT
Found at i:18199376 original size:16 final size:15
Alignment explanation
Indices: 18199356--18199430 Score: 80
Period size: 16 Copynumber: 4.8 Consensus size: 15
18199346 CTTAATATGC
18199356 TTTCTTTCTTCTTTT
1 TTTCTTTCTTCTTTT
*
18199371 CTTTCTTTTTTCTCTTAT
1 -TTTCTTTCTTCT-TT-T
*
18199389 TTTTTCTTCTTCTTTT
1 TTTCT-TTCTTCTTTT
18199405 TTTCTTT-TTCTTTT
1 TTTCTTTCTTCTTTT
*
18199419 TTTCTTTTTTCT
1 TTTCTTTCTTCT
18199431 GTCCTCGACT
Statistics
Matches: 51, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
14 14 0.27
15 6 0.12
16 16 0.31
17 8 0.16
18 7 0.14
ACGTcount: A:0.01, C:0.19, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTCTTTCTTCTTTT
Found at i:18199401 original size:25 final size:23
Alignment explanation
Indices: 18199358--18199430 Score: 87
Period size: 25 Copynumber: 3.0 Consensus size: 23
18199348 TAATATGCTT
18199358 TCTTTCTTCTTTTCTTTCTTTTTTC
1 TCTTT-TTCTTTT-TTTCTTTTTTC
18199383 TCTTATTT-TTTCTTCTTCTTTTTT-
1 TCTT-TTTCTTT-TT-TTCTTTTTTC
18199407 TCTTTTTCTTTTTTTCTTTTTTC
1 TCTTTTTCTTTTTTTCTTTTTTC
18199430 T
1 T
18199431 GTCCTCGACT
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
22 9 0.21
23 6 0.14
24 11 0.26
25 16 0.37
26 1 0.02
ACGTcount: A:0.01, C:0.19, G:0.00, T:0.79
Consensus pattern (23 bp):
TCTTTTTCTTTTTTTCTTTTTTC
Found at i:18199405 original size:14 final size:14
Alignment explanation
Indices: 18199376--18199424 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
18199366 CTTTTCTTTC
*
18199376 TTTTTTC-TCTT-A
1 TTTTTTCTTCTTCT
18199388 TTTTTTCTTCTTCT
1 TTTTTTCTTCTTCT
*
18199402 TTTTTTCTTTTTCT
1 TTTTTTCTTCTTCT
18199416 TTTTTTCTT
1 TTTTTTCTT
18199425 TTTTCTGTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
12 7 0.21
13 4 0.12
14 22 0.67
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTTTTCTTCTTCT
Found at i:18202372 original size:16 final size:16
Alignment explanation
Indices: 18202351--18202384 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
18202341 TATCATAATG
*
18202351 ATTTTTGAAAACAATT
1 ATTTTTAAAAACAATT
18202367 ATTTTTAAAAACAATT
1 ATTTTTAAAAACAATT
18202383 AT
1 AT
18202385 GACTTATTTA
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:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (16 bp):
ATTTTTAAAAACAATT
Found at i:18204782 original size:3 final size:3
Alignment explanation
Indices: 18204772--18204819 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
18204762 AAAATATTAT
18204772 TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
18204819 T
1 T
18204820 TGATAACAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.05
3 42 0.95
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:18208193 original size:21 final size:21
Alignment explanation
Indices: 18208167--18208218 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
18208157 AATATGAAGA
18208167 AACTTACCATCCCCAACCATC
1 AACTTACCATCCCCAACCATC
*
18208188 AACTTACCATCCTCAACCATC
1 AACTTACCATCCCCAACCATC
18208209 AACTTACCAT
1 AACTTACCAT
18208219 GACAAGTATA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.35, C:0.42, G:0.00, T:0.23
Consensus pattern (21 bp):
AACTTACCATCCCCAACCATC
Found at i:18209554 original size:16 final size:16
Alignment explanation
Indices: 18209533--18209566 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
18209523 TATCATAAAA
*
18209533 ATTTTTGAAAACAATT
1 ATTTTTAAAAACAATT
18209549 ATTTTTAAAAACAATT
1 ATTTTTAAAAACAATT
18209565 AT
1 AT
18209567 GACTTATTTA
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:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (16 bp):
ATTTTTAAAAACAATT
Found at i:18212119 original size:3 final size:3
Alignment explanation
Indices: 18212109--18212162 Score: 101
Period size: 3 Copynumber: 18.3 Consensus size: 3
18212099 AAAGTATTAT
18212109 TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
18212156 TAA TAA T
1 TAA TAA T
18212163 TGATAACAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 48 0.96
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:18217200 original size:38 final size:36
Alignment explanation
Indices: 18217147--18217424 Score: 224
Period size: 36 Copynumber: 7.8 Consensus size: 36
18217137 AAAATATGGG
*
18217147 TAATATATAGTTTTTTTAAAATATTTTTTGAAAACTATA
1 TAATATATAG--TTTTTAAAACA-TTTTTGAAAACTATA
* * *
18217186 TAACATATAGTTTTTAAAACATTTTAGAAAATATATA
1 TAATATATAGTTTTTAAAACATTTTTGAAAA-CTATA
* *
18217223 TAACATATAG-TTTTAAAATCA-TTTTAAAAACTTATA
1 TAATATATAGTTTTTAAAA-CATTTTTGAAAAC-TATA
* *
18217259 TAATATATAGTTTTAAAAACATTTTTGAATAAATTATA
1 TAATATATAGTTTTTAAAACATTTTTG-A-AAACTATA
* * *
18217297 TAATATATAGTTTTAAAAACGTTTTTTAAAAACT-TA
1 TAATATATAGTTTTTAAAAC-ATTTTTGAAAACTATA
18217333 T-ATA-ATA-TTTTTAAAACA-TTTTGAAAACTATA
1 TAATATATAGTTTTTAAAACATTTTTGAAAACTATA
* *
18217365 T-A-ATATAGTTTTGAAAAC-TTTTT--TAA--ATA
1 TAATATATAGTTTTTAAAACATTTTTGAAAACTATA
** *
18217394 TAATATATAGTTTAAAAAAATATTTTTGAAA
1 TAATATATAGTTT-TTAAAACATTTTTGAAA
18217425 TATATGTATT
Statistics
Matches: 198, Mismatches: 23, Indels: 40
0.76 0.09 0.15
Matches are distributed among these distances:
29 4 0.02
30 1 0.01
31 22 0.11
32 11 0.06
33 27 0.14
34 3 0.02
35 4 0.02
36 42 0.21
37 41 0.21
38 26 0.13
39 17 0.09
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (36 bp):
TAATATATAGTTTTTAAAACATTTTTGAAAACTATA
Found at i:18217481 original size:14 final size:15
Alignment explanation
Indices: 18217464--18217495 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
18217454 AGTATTATTA
18217464 TTATTTA-TTTCTTT
1 TTATTTATTTTCTTT
18217478 TTA-TTATTTTCTTT
1 TTATTTATTTTCTTT
18217492 TTAT
1 TTAT
18217496 GTTTTTTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 3
0.84 0.00 0.16
Matches are distributed among these distances:
13 3 0.19
14 13 0.81
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (15 bp):
TTATTTATTTTCTTT
Found at i:18219802 original size:17 final size:17
Alignment explanation
Indices: 18219782--18219814 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
18219772 CTCACTAACC
18219782 CTTTTACTTTTTGTTCT
1 CTTTTACTTTTTGTTCT
*
18219799 CTTTTATTTTTTGTTC
1 CTTTTACTTTTTGTTC
18219815 ATCGTTTGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.15, G:0.06, T:0.73
Consensus pattern (17 bp):
CTTTTACTTTTTGTTCT
Found at i:18220469 original size:19 final size:19
Alignment explanation
Indices: 18220435--18220479 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
18220425 ATTTAGACAT
18220435 TTTGCA-TTTCTTATTTTC
1 TTTGCATTTTCTTATTTTC
*
18220453 TTTGCATTTTGTTATTTTC
1 TTTGCATTTTCTTATTTTC
18220472 TTTGCATT
1 TTTGCATT
18220480 CACATTAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.11, C:0.13, G:0.09, T:0.67
Consensus pattern (19 bp):
TTTGCATTTTCTTATTTTC
Found at i:18224005 original size:81 final size:81
Alignment explanation
Indices: 18223851--18224278 Score: 581
Period size: 81 Copynumber: 5.2 Consensus size: 81
18223841 GCTCAAGGCC
** * * * *
18223851 AGAAGGGCTATCTGCCCACCAAGACCTTCAAGTTCGACTACGCTCAGC-TCCAAGGCACATCATT
1 AGAAGGGCTATCTG-CCA--AAGACCCCCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATT
*
18223915 TGCAGCATAGCTTAAATCG
63 TGCAGCATAACTTAAATCG
*
18223934 AGAAGGGCTATCTGCCAAAGGCCCCCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGC
1 AGAAGGGCTATCTGCCAAAGACCCCCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGC
*
18223999 AGCATAGCTTAAATCG
66 AGCATAACTTAAATCG
18224015 AGAAGGGCTATCTGCCAAAGACCCCCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGC
1 AGAAGGGCTATCTGCCAAAGACCCCCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGC
*
18224080 AGCATAACTTAAGTCG
66 AGCATAACTTAAATCG
* **** * * * *
18224096 AGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGC-TCAACGGCACATCAT
1 AGAAGGGCTATCTG----CCAAAGACCCCCAAGTTCGATTACACTCAGCTTCGAGGGCACATCAT
*
18224160 TTACAGCATAACTTAAATCG
62 TTGCAGCATAACTTAAATCG
18224180 AGAAGGGCTATCTGCCAAAGACCCCCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGC
1 AGAAGGGCTATCTGCCAAAGACCCCCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGC
*
18224245 AGCATAACTTAAGTCG
66 AGCATAACTTAAATCG
*
18224261 AGAAGGGTTATCTGCCAA
1 AGAAGGGCTATCTGCCAA
18224279 CAAAAGACCT
Statistics
Matches: 306, Mismatches: 33, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
80 48 0.16
81 172 0.56
82 3 0.01
83 14 0.05
84 44 0.14
85 25 0.08
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (81 bp):
AGAAGGGCTATCTGCCAAAGACCCCCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGC
AGCATAACTTAAATCG
Done.