Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007373.1 Hibiscus syriacus cultivar Beakdansim tig00019789_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: 561090
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:11373 original size:93 final size:94
Alignment explanation
Indices: 11202--11419 Score: 273
Period size: 93 Copynumber: 2.3 Consensus size: 94
11192 ATTAAAACAA
*
11202 TATCGGTACCA-AGCGATGTAGTATCAATACCATGGTAAGGGTATCGATACAAGGAAACATCGAA
1 TATCGGTACCATAGC-ATGTAGTATCGATACCATGGTAAGGGTATCGATACAAGGAAACATCGAA
11266 CCTAATTTTGGTATCGATAC-CGAATAGAGG
65 CCTAATTTTGGTATCGATACACGAA-AGAGG
* **
11296 TATCGGTACCATAGCATAGTAGTATCGATACCATGGTAA-GGTATCGATAC-CGGCTACATCGAA
1 TATCGGTACCATAGCAT-GTAGTATCGATACCATGGTAAGGGTATCGATACAAGGAAACATCGAA
* * * *
11359 GCTAATTTTGGTATCGATACAGGAAGGGGG
65 CCTAATTTTGGTATCGATACACGAAAGAGG
* * *
11389 TATCGATACCATAGTAGGGTAGTATCGATAC
1 TATCGGTACCATAGCA-TGTAGTATCGATAC
11420 GATAGGGTAT
Statistics
Matches: 109, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
93 59 0.54
94 27 0.25
95 23 0.21
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.26
Consensus pattern (94 bp):
TATCGGTACCATAGCATGTAGTATCGATACCATGGTAAGGGTATCGATACAAGGAAACATCGAAC
CTAATTTTGGTATCGATACACGAAAGAGG
Found at i:11913 original size:45 final size:45
Alignment explanation
Indices: 11859--12159 Score: 329
Period size: 45 Copynumber: 6.7 Consensus size: 45
11849 AGGATGCCAT
* *
11859 AGTTGAAATGCATATAGGTGCATTATCAACAGAAAAGTATGCTGG
1 AGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATGCTAG
* * * *
11904 AGTTAAAATGCGTATGGGTGCATTATCAACAAAAAAGTAAGCTAG
1 AGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATGCTAG
* * * * *
11949 AGTCGAAATGCATATGGGTACATTATCAACAGAAATGTATGTTAT
1 AGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATGCTAG
*
11994 AGTTGAAATGCATATGGGTGCATTATCAACAGAAGAA-CATGCTAG
1 AGTTGAAATGCATATGGGTGCATTATCAACAGAA-AAGTATGCTAG
** * * *
12039 AGTTGAAATATATATGGGTACATTATCAACAGAAAAGTATACTAT
1 AGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATGCTAG
** * * *
12084 AGTTGAAATGCATATGGGTGTGTTATTAACAGAAAAG-ATGTTAT
1 AGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATGCTAG
* * *
12128 AGTTTAAAGTGCATAAT-GGTGTATTATAAACA
1 AGTTGAAA-TGCAT-ATGGGTGCATTATCAACA
12160 TAAATGGAGG
Statistics
Matches: 214, Mismatches: 38, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
44 14 0.07
45 197 0.92
46 3 0.01
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.29
Consensus pattern (45 bp):
AGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATGCTAG
Found at i:12063 original size:135 final size:133
Alignment explanation
Indices: 11857--12159 Score: 367
Period size: 135 Copynumber: 2.2 Consensus size: 133
11847 AAAGGATGCC
* * * *
11857 ATAGTTGAAATGCATATAGGTGCATTATCAACAGAAAAGTATGCTGGAGTTAAAATGCGTATGGG
1 ATAGTTGAAATGCATAT-GGTGCATTATCAACAGAAAAGCATGCTAGAGTTAAAATACATATGGG
* *
11922 TGCATTATCAACAAAAAAGTA-AGCTAGAGTCGAAATGCATATGGGTACATTATCAACAGAAATG
65 TACATTATCAACAAAAAAGTATA-CTAGAGTCGAAATGCATATGGGTACATTATCAACAGAAAAG
11986 TATGTT
129 -ATGTT
* *
11992 ATAGTTGAAATGCATATGGGTGCATTATCAACAGAAGAA-CATGCTAGAGTTGAAATATATATGG
1 ATAGTTGAAATGCATAT-GGTGCATTATCAACAGAA-AAGCATGCTAGAGTTAAAATACATATGG
* * * *** *
12056 GTACATTATCAACAGAAAAGTATACTATAGTTGAAATGCATATGGGTGTGTTATTAACAGAAAAG
64 GTACATTATCAACAAAAAAGTATACTAGAGTCGAAATGCATATGGGTACATTATCAACAGAAAAG
12121 ATGTT
129 ATGTT
* * *
12126 ATAGTTTAAAGTGCATAATGGTGTATTATAAACA
1 ATAGTTGAAA-TGCAT-ATGGTGCATTATCAACA
12160 TAAATGGAGG
Statistics
Matches: 145, Mismatches: 19, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
134 14 0.10
135 126 0.87
136 5 0.03
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (133 bp):
ATAGTTGAAATGCATATGGTGCATTATCAACAGAAAAGCATGCTAGAGTTAAAATACATATGGGT
ACATTATCAACAAAAAAGTATACTAGAGTCGAAATGCATATGGGTACATTATCAACAGAAAAGAT
GTT
Found at i:18255 original size:20 final size:18
Alignment explanation
Indices: 18211--18257 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 18
18201 AGCTAATTTT
18211 GGTATCGATA-CTAGAAG
1 GGTATCGATACCTAGAAG
*
18228 GG-ATCGATACCATAGTAGG
1 GGTATCGATACC-TAG-AAG
18247 GGTATCGATAC
1 GGTATCGATAC
18258 TGAAGAGCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 7 0.28
17 3 0.12
18 3 0.12
19 4 0.16
20 8 0.32
ACGTcount: A:0.32, C:0.15, G:0.30, T:0.23
Consensus pattern (18 bp):
GGTATCGATACCTAGAAG
Found at i:18962 original size:45 final size:45
Alignment explanation
Indices: 18646--18947 Score: 363
Period size: 45 Copynumber: 6.7 Consensus size: 45
18636 ATGAAAATAC
*** * * * *
18646 AAATGCATATGGGTGCATTATTGGCATG-AAAGGATACCATAGTTG
1 AAATGCATATGGGTGCATTATCAACA-GAAAAGTATGCTAGAGTTG
* * * *
18691 AAATACATATGGGTTCATTACCAACAGAAAAGTATGCTAGAGTTA
1 AAATGCATATGGGTGCATTATCAACAGAAAAGTATGCTAGAGTTG
*
18736 AAATGCATATGGGTGCATTATCAATAGAAAAGTATGCTAGAGTTG
1 AAATGCATATGGGTGCATTATCAACAGAAAAGTATGCTAGAGTTG
* * * *
18781 AAATGTATATGGGTGCATTATCAACATACATGTATGCTAGAGTTG
1 AAATGCATATGGGTGCATTATCAACAGAAAAGTATGCTAGAGTTG
* *
18826 AAATGCATATGGGTGCATTATCAACAGAAGAGCATGCTAGAGTTG
1 AAATGCATATGGGTGCATTATCAACAGAAAAGTATGCTAGAGTTG
** * * * *
18871 AAATATATATGGGTACATTATCAACAGAAAATTATACTATAGTTG
1 AAATGCATATGGGTGCATTATCAACAGAAAAGTATGCTAGAGTTG
*
18916 AAATGCATATGGGTGCATTATCAACATAAAAG
1 AAATGCATATGGGTGCATTATCAACAGAAAAG
18948 ATGTTATAGT
Statistics
Matches: 216, Mismatches: 40, Indels: 2
0.84 0.16 0.01
Matches are distributed among these distances:
44 1 0.00
45 215 1.00
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.29
Consensus pattern (45 bp):
AAATGCATATGGGTGCATTATCAACAGAAAAGTATGCTAGAGTTG
Found at i:18981 original size:90 final size:89
Alignment explanation
Indices: 18707--18986 Score: 309
Period size: 90 Copynumber: 3.1 Consensus size: 89
18697 ATATGGGTTC
* * * * *
18707 ATTACCAACAGAAAAGTATGCTAGAGTTAAAATGCATATGGGTGCATTATCAATAGAAAAGTATG
1 ATTATCAACAGAAAATTATGCTAGAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGCATG
*
18772 CTAGAGTTGAAATG-TATATGGGTGC
66 CTAGAGTTGAAATGATA-AT-GGTGT
* * *
18797 ATTATCAACA-TACATGTATGCTAGAGTTGAAATGCATATGGGTGCATTATCAACAGAAGAGCAT
1 ATTATCAACAGAAAAT-TATGCTAGAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGCAT
18861 GCTAGAGTTGAAAT-ATATATGG-GT
65 GCTAGAGTTGAAATGATA-ATGGTGT
* * *
18885 ACATTATCAACAGAAAATTATACTATAGTTGAAATGCATATGGGTGCATTATCAACATAAAAG-A
1 --ATTATCAACAGAAAATTATGCTAGAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGCA
* * *
18949 TGTTATAGTTTGAAGTGAATAATGGTGT
64 TGCTAGAG-TTGAAATG-ATAATGGTGT
*
18977 ATTATAAACA
1 ATTATCAACA
18987 TAAATGGAGG
Statistics
Matches: 162, Mismatches: 19, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
88 1 0.01
89 11 0.07
90 138 0.85
91 7 0.04
92 5 0.03
ACGTcount: A:0.39, C:0.10, G:0.21, T:0.30
Consensus pattern (89 bp):
ATTATCAACAGAAAATTATGCTAGAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGCATG
CTAGAGTTGAAATGATAATGGTGT
Found at i:18981 original size:135 final size:135
Alignment explanation
Indices: 18646--18986 Score: 373
Period size: 135 Copynumber: 2.5 Consensus size: 135
18636 ATGAAAATAC
*** * * * * * *
18646 AAATGCATATGGGTGCATTATTGGCATGAAAGGATACCATAGTTGAAAT-ACATATGGGTTCATT
1 AAATGCATATGGGTGCATTATCAACATAAAAGTATGCTAGAGTTGAAATGA-ATATGGGTGCATT
* * * * * *
18710 ACCAACAGAAAAGTATGCTAGAGTTAAAATGCATATGGGTGCATTATCAATAGAAAAGTATGCTA
65 ATCAACAGAAAAGCATGCTAGAGTTAAAATACATATGGGTACATTATCAACAGAAAAGTATACTA
18775 GAGTTG
130 GAGTTG
* * * *
18781 AAATGTATATGGGTGCATTATCAACATACATGTATGCTAGAGTTGAAATGCATATGGGTGCATTA
1 AAATGCATATGGGTGCATTATCAACATAAAAGTATGCTAGAGTTGAAATGAATATGGGTGCATTA
* * * * *
18846 TCAACAGAAGAGCATGCTAGAGTTGAAATATATATGGGTACATTATCAACAGAAAATTATACTAT
66 TCAACAGAAAAGCATGCTAGAGTTAAAATACATATGGGTACATTATCAACAGAAAAGTATACTAG
18911 AGTTG
131 AGTTG
* * * *
18916 AAATGCATATGGGTGCATTATCAACATAAAAG-ATGTTATAGTTTGAAGTGAATAAT-GGTGTAT
1 AAATGCATATGGGTGCATTATCAACATAAAAGTATGCTAGAG-TTGAAATGAAT-ATGGGTGCAT
*
18979 TATAAACA
64 TATCAACA
18987 TAAATGGAGG
Statistics
Matches: 170, Mismatches: 33, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
134 7 0.04
135 161 0.95
136 2 0.01
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.30
Consensus pattern (135 bp):
AAATGCATATGGGTGCATTATCAACATAAAAGTATGCTAGAGTTGAAATGAATATGGGTGCATTA
TCAACAGAAAAGCATGCTAGAGTTAAAATACATATGGGTACATTATCAACAGAAAAGTATACTAG
AGTTG
Found at i:23497 original size:6 final size:6
Alignment explanation
Indices: 23469--23506 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
23459 GTGCTACAAC
*
23469 AAAAAG AAAGAAG AAAAAC AAAAAG -AAAAG AAAAAG AA
1 AAAAAG AAA-AAG AAAAAG AAAAAG AAAAAG AAAAAG AA
23507 CTCCTACATC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
5 5 0.18
6 17 0.61
7 6 0.21
ACGTcount: A:0.82, C:0.03, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:23545 original size:5 final size:5
Alignment explanation
Indices: 23530--23573 Score: 56
Period size: 5 Copynumber: 8.8 Consensus size: 5
23520 TTTGGAGTAC
23530 AAAAGG AAAAG AAAAG AAAAG --AAG AAAAG AAAAAG AAAAG AAAA
1 AAAA-G AAAAG AAAAG AAAAG AAAAG AAAAG -AAAAG AAAAG AAAA
23574 AGTTGAAGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
3 3 0.09
5 23 0.66
6 9 0.26
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:23565 original size:19 final size:18
Alignment explanation
Indices: 23535--23571 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
23525 AGTACAAAAG
23535 GAAAAGAAAAGAAAAGAA
1 GAAAAGAAAAGAAAAGAA
23553 GAAAAGAAAAAGAAAAGAA
1 GAAAAG-AAAAGAAAAGAA
23572 AAAGTTGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (18 bp):
GAAAAGAAAAGAAAAGAA
Found at i:23567 original size:11 final size:11
Alignment explanation
Indices: 23530--23575 Score: 65
Period size: 11 Copynumber: 4.0 Consensus size: 11
23520 TTTGGAGTAC
*
23530 AAAAGGAAAAG
1 AAAAGAAAAAG
23541 AAAAGAAAAGAAG
1 AAAAG-AAA-AAG
23554 AAAAGAAAAAG
1 AAAAGAAAAAG
23565 AAAAGAAAAAG
1 AAAAGAAAAAG
23576 TTGAAGAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
11 19 0.59
12 5 0.16
13 8 0.25
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAAG
Found at i:23788 original size:14 final size:15
Alignment explanation
Indices: 23753--23788 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
23743 TGTTATCTCT
23753 TCTTACC-TCTTACC
1 TCTTACCATCTTACC
23767 TCTT-CCATCTTACC
1 TCTTACCATCTTACC
23781 T-TTACCAT
1 TCTTACCAT
23789 ATTCATTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.17, C:0.39, G:0.00, T:0.44
Consensus pattern (15 bp):
TCTTACCATCTTACC
Found at i:28176 original size:44 final size:45
Alignment explanation
Indices: 28126--28391 Score: 360
Period size: 44 Copynumber: 6.0 Consensus size: 45
28116 GTAAGTATGC
* *
28126 AAATAAGCTTACGAGCTTATGGAAT-AATGGCAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTA
*
28170 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGCA
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTA
* * **
28215 AAATAAGCTTACGAGCCTATGGTATAAATGACAAGTATA-TGGTA
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTA
* * *
28259 AAATAAGCTTACGAGCTTATGGTATAAATGATAAGTATA-TGATA
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTA
* *
28303 AAATAAGCTTATGAGCTTATGGGATAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTA
* *
28348 AAATAAGCTTACGAGCTTATGGTTAATAAATGGTAA-AATATTGG
1 AAATAAGCTTACGAGCTTATGG--GATAAATGGTAAGTATATTGG
28392 ATATGCAAAA
Statistics
Matches: 198, Mismatches: 20, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
44 104 0.53
45 77 0.39
46 6 0.03
47 11 0.06
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTA
Found at i:28229 original size:89 final size:90
Alignment explanation
Indices: 28108--28391 Score: 370
Period size: 89 Copynumber: 3.2 Consensus size: 90
28098 TTTATTGGTT
28108 AATAAATGGTAAG--TA-T-GC-AAATAAGCTTACGAGCTTATGGAAT-AATGGCAAGTATATTG
1 AATAAATGGTAAGTATATTGGCAAAATAAGCTTACGAGCTTATGGAATAAATGGCAAGTATATTG
28167 GTAAAATAAGCTTACGAGCTTATGG
66 GTAAAATAAGCTTACGAGCTTATGG
* * * *
28192 GATAAATGGTAAGTATATTGGCAAAATAAGCTTACGAGCCTATGGTATAAATGACAAGTATA-TG
1 AATAAATGGTAAGTATATTGGCAAAATAAGCTTACGAGCTTATGGAATAAATGGCAAGTATATTG
28256 GTAAAATAAGCTTACGAGCTTATGG
66 GTAAAATAAGCTTACGAGCTTATGG
* * ** * * * *
28281 TATAAATGATAAGTATA-TGATAAAATAAGCTTATGAGCTTATGGGATAAATGGTAAGTATTTTG
1 AATAAATGGTAAGTATATTGGCAAAATAAGCTTACGAGCTTATGGAATAAATGGCAAGTATATTG
28345 GTAAAATAAGCTTACGAGCTTATGG
66 GTAAAATAAGCTTACGAGCTTATGG
*
28370 TTAATAAATGGTAA-AATATTGG
1 --AATAAATGGTAAGTATATTGG
28392 ATATGCAAAA
Statistics
Matches: 172, Mismatches: 18, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
84 12 0.07
86 2 0.01
87 1 0.01
88 38 0.22
89 92 0.53
90 15 0.09
91 12 0.07
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.31
Consensus pattern (90 bp):
AATAAATGGTAAGTATATTGGCAAAATAAGCTTACGAGCTTATGGAATAAATGGCAAGTATATTG
GTAAAATAAGCTTACGAGCTTATGG
Found at i:28369 original size:133 final size:135
Alignment explanation
Indices: 28126--28379 Score: 406
Period size: 133 Copynumber: 1.9 Consensus size: 135
28116 GTAAGTATGC
* *
28126 AAATAAGCTTACGAGCTTATGGAATAATGGCAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
1 AAATAAGCTTACGAGCTTATGGAATAATGACAAGTATATTGATAAAATAAGCTTACGAGCTTATG
28191 GGATAAATGGTAAGTATATTGGCAAAATAAGCTTACGAGCCTATGG-T-ATAAATGACAAGTATA
66 GGATAAATGGTAAGTATATTGGCAAAATAAGCTTACGAGCCTATGGTTAATAAATGACAAGTATA
28254 TGGTA
131 TGGTA
* * *
28259 AAATAAGCTTACGAGCTTATGGTATAAATGATAAGTATA-TGATAAAATAAGCTTATGAGCTTAT
1 AAATAAGCTTACGAGCTTATGGAAT-AATGACAAGTATATTGATAAAATAAGCTTACGAGCTTAT
* * *
28323 GGGATAAATGGTAAGTATTTTGGTAAAATAAGCTTACGAGCTTATGGTTAATAAATG
65 GGGATAAATGGTAAGTATATTGGCAAAATAAGCTTACGAGCCTATGGTTAATAAATG
28380 GTAAAATATT
Statistics
Matches: 110, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
133 91 0.83
134 12 0.11
135 7 0.06
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (135 bp):
AAATAAGCTTACGAGCTTATGGAATAATGACAAGTATATTGATAAAATAAGCTTACGAGCTTATG
GGATAAATGGTAAGTATATTGGCAAAATAAGCTTACGAGCCTATGGTTAATAAATGACAAGTATA
TGGTA
Found at i:28853 original size:25 final size:26
Alignment explanation
Indices: 28801--28868 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 26
28791 CACTGTTCAC
* * * *
28801 GGGTACTATTCAATATTATTGTTAAT
1 GGGTACTGTTCACTATTACTATTAAT
*
28827 -GGTACTGTTCACTATTACTATTCAT
1 GGGTACTGTTCACTATTACTATTAAT
*
28852 GGGTATTGTTCACTATT
1 GGGTACTGTTCACTATT
28869 CATAAAAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
25 20 0.57
26 15 0.43
ACGTcount: A:0.25, C:0.13, G:0.16, T:0.46
Consensus pattern (26 bp):
GGGTACTGTTCACTATTACTATTAAT
Found at i:30680 original size:13 final size:13
Alignment explanation
Indices: 30661--30694 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
30651 TTTTATGAAT
*
30661 AGTGAACAGTATC
1 AGTGAACAGTAAC
*
30674 CGTGAACAGTAAC
1 AGTGAACAGTAAC
30687 AGTGAACA
1 AGTGAACA
30695 TTGACGATGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.41, C:0.18, G:0.24, T:0.18
Consensus pattern (13 bp):
AGTGAACAGTAAC
Found at i:31231 original size:47 final size:47
Alignment explanation
Indices: 31167--31308 Score: 225
Period size: 47 Copynumber: 3.1 Consensus size: 47
31157 ATAAAATATT
* * *
31167 TTACCATTT--ATCCCATAAGCTCGTAAGCTTATTTTACCAAAATAC
1 TTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTATCAATATAC
* *
31212 TTATCATTTAAATTCCATAAGTTCGTAAGCTTATTTTATCAATATAC
1 TTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTATCAATATAC
31259 TTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTATCAATATAC
1 TTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTATCAATATAC
31306 TTA
1 TTA
31309 GTATTTATTA
Statistics
Matches: 88, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
45 8 0.09
47 80 0.91
ACGTcount: A:0.34, C:0.19, G:0.06, T:0.41
Consensus pattern (47 bp):
TTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTATCAATATAC
Found at i:34031 original size:22 final size:23
Alignment explanation
Indices: 33986--34031 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
33976 ATTAAAAGAA
* *
33986 TAGATATAAGAGGATATGATTAT
1 TAGATATAAGAGGATAAGAATAT
*
34009 TAGATATAA-ATGATAAGAATAT
1 TAGATATAAGAGGATAAGAATAT
34031 T
1 T
34032 GTTGGTGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.48, C:0.00, G:0.17, T:0.35
Consensus pattern (23 bp):
TAGATATAAGAGGATAAGAATAT
Found at i:35843 original size:31 final size:29
Alignment explanation
Indices: 35775--35862 Score: 95
Period size: 30 Copynumber: 2.9 Consensus size: 29
35765 GAAAGACCTA
* * *
35775 TCCATATGTTCTGGAGAACATAGGTAACCT
1 TCCATATG-TCTGAAGGACATAGGTAAACT
*
35805 TCCATATGTCCTGAAGGACATTGGTAAACT
1 TCCATATGT-CTGAAGGACATAGGTAAACT
*
35835 GTCCATATGTCTCGAAAGACATAGGTAA
1 -TCCATATGTCT-GAAGGACATAGGTAA
35863 CCCTCGACTC
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 1 0.02
30 26 0.53
31 22 0.45
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.28
Consensus pattern (29 bp):
TCCATATGTCTGAAGGACATAGGTAAACT
Found at i:36917 original size:20 final size:20
Alignment explanation
Indices: 36888--36942 Score: 65
Period size: 23 Copynumber: 2.6 Consensus size: 20
36878 ATTTAAAGTA
*
36888 GGTATTGGTACCCTCTACAG
1 GGTATCGGTACCCTCTACAG
*
36908 GGTATCGGTACACCCCTCTATAG
1 GGTATCGGT--A-CCCTCTACAG
36931 GGTATCGGTACC
1 GGTATCGGTACC
36943 ATACCTAGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
20 10 0.33
21 1 0.03
22 1 0.03
23 18 0.60
ACGTcount: A:0.20, C:0.27, G:0.25, T:0.27
Consensus pattern (20 bp):
GGTATCGGTACCCTCTACAG
Found at i:36932 original size:23 final size:23
Alignment explanation
Indices: 36898--36941 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
36888 GGTATTGGTA
36898 CCCTCTACAGGGTATCGGTACAC
1 CCCTCTACAGGGTATCGGTACAC
*
36921 CCCTCTATAGGGTATCGGTAC
1 CCCTCTACAGGGTATCGGTAC
36942 CATACCTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.20, C:0.32, G:0.23, T:0.25
Consensus pattern (23 bp):
CCCTCTACAGGGTATCGGTACAC
Found at i:45450 original size:25 final size:26
Alignment explanation
Indices: 45405--45454 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
45395 CAAAATAAAA
45405 ATTTTCAGTATTCATAAATAAAACAG
1 ATTTTCAGTATTCATAAATAAAACAG
* *
45431 ATTTTCAG-ATTCGTATATAAAACA
1 ATTTTCAGTATTCATAAATAAAACA
45455 AAATACAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.44, C:0.12, G:0.08, T:0.36
Consensus pattern (26 bp):
ATTTTCAGTATTCATAAATAAAACAG
Found at i:46086 original size:24 final size:24
Alignment explanation
Indices: 46022--46089 Score: 91
Period size: 24 Copynumber: 2.8 Consensus size: 24
46012 AAACGGAGAT
* * *
46022 ATCATAAATCAAAACAGAATACAG
1 ATCAGAAATCAGAACATAATACAG
* *
46046 ATCAGATATCAGAACATAATCCAG
1 ATCAGAAATCAGAACATAATACAG
46070 ATCAGAAATCAGAACATAAT
1 ATCAGAAATCAGAACATAAT
46090 TCAGGTAATG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.53, C:0.18, G:0.10, T:0.19
Consensus pattern (24 bp):
ATCAGAAATCAGAACATAATACAG
Found at i:47372 original size:17 final size:18
Alignment explanation
Indices: 47340--47375 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
47330 TGCATTTAAA
*
47340 TCATCTAAAGTAGTTCAT
1 TCATCTAAACTAGTTCAT
47358 TCATC-AAACTAGTTCAT
1 TCATCTAAACTAGTTCAT
47375 T
1 T
47376 TATTAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.33, C:0.19, G:0.08, T:0.39
Consensus pattern (18 bp):
TCATCTAAACTAGTTCAT
Found at i:47502 original size:12 final size:12
Alignment explanation
Indices: 47485--47516 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
47475 ATCATATGCA
47485 AGAATGTCAGTC
1 AGAATGTCAGTC
47497 AGAATGTCAGTC
1 AGAATGTCAGTC
47509 AGAATGTC
1 AGAATGTC
47517 TTCCAATTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (12 bp):
AGAATGTCAGTC
Found at i:48715 original size:44 final size:45
Alignment explanation
Indices: 48650--48748 Score: 164
Period size: 44 Copynumber: 2.2 Consensus size: 45
48640 AAAATAAAAG
*
48650 AAAGAAAAAAGGTTTAAAGAGGGAGGGCGTAATTCTTTTCATCCTT
1 AAAG-AAAAAGGTTTAAAGAGGGAGGGAGTAATTCTTTTCATCCTT
*
48696 AAAGAAAAA-GTTTAAAGAGGGAGGGAGTAATTCTTTTCATCTTT
1 AAAGAAAAAGGTTTAAAGAGGGAGGGAGTAATTCTTTTCATCCTT
48740 AAAGAAAAA
1 AAAGAAAAA
48749 AATATTTACG
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
44 42 0.82
45 5 0.10
46 4 0.08
ACGTcount: A:0.42, C:0.08, G:0.22, T:0.27
Consensus pattern (45 bp):
AAAGAAAAAGGTTTAAAGAGGGAGGGAGTAATTCTTTTCATCCTT
Found at i:49034 original size:14 final size:15
Alignment explanation
Indices: 49015--49043 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
49005 GGAGTGTTTG
49015 GTGAGGTT-TTTTTT
1 GTGAGGTTATTTTTT
49029 GTGAGGTTATTTTTT
1 GTGAGGTTATTTTTT
49044 TAATTACTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.10, C:0.00, G:0.28, T:0.62
Consensus pattern (15 bp):
GTGAGGTTATTTTTT
Found at i:50090 original size:19 final size:19
Alignment explanation
Indices: 50066--50110 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
50056 ACGTGGACAC
50066 ATTGCAAGCCAATGTCCAA
1 ATTGCAAGCCAATGTCCAA
50085 ATTGCAAGCCAATGTCCAA
1 ATTGCAAGCCAATGTCCAA
*
50104 ATCGCAA
1 ATTGCAA
50111 AACCATGCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.38, C:0.27, G:0.16, T:0.20
Consensus pattern (19 bp):
ATTGCAAGCCAATGTCCAA
Found at i:52499 original size:17 final size:17
Alignment explanation
Indices: 52479--52517 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
52469 TTTAGGGAAT
*
52479 TAGTTCATTAATTAAAC
1 TAGTTCATTAATCAAAC
*
52496 TAGTTCATTCATCAAAC
1 TAGTTCATTAATCAAAC
52513 TAGTT
1 TAGTT
52518 TGTTTATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.36, C:0.15, G:0.08, T:0.41
Consensus pattern (17 bp):
TAGTTCATTAATCAAAC
Found at i:55888 original size:69 final size:67
Alignment explanation
Indices: 55793--56063 Score: 246
Period size: 66 Copynumber: 4.0 Consensus size: 67
55783 AGGGGTGGTC
* * *
55793 GTGGTGACTTATACTTGTATGGCTCCTTAAGAGGAGGAGGAGGAGACTTGTACTTGTACACTGGA
1 GTGGAGACTTGTACTTGTATGGCTCCTT--GAGGAGGAGGAGGAGACTTGTACTTGTAGACTGGA
55858 GGAG
64 GGAG
* * * * *
55862 GTGGAGACTTGTATTTGTATGACTCCTT-AGGAGGAAGAGGAGACTTATACTTGTAGACTGGTGG
1 GTGGAGACTTGTACTTGTATGGCTCCTTGAGGAGGAGGAGGAGACTTGTACTTGTAGACTGGAGG
*
55926 GG
66 AG
* * * *
55928 GTGGCAGTGGACTTGTA-TTGTATGGTTCCTTGGAAGGAGGAGGAAGAGACTTGTACACTGGAGA
1 GTGG-A---GACTTGTACTTGTATGGCTCCTT-G-AGGAGGAGGAGGAGACTTGTAC-TTGTAGA
* * *
55992 -AGGTGGAA
59 CTGGAGGAG
* * *
56000 GTGGAGATTTGTACTTGTATGGCTTCTTGA-GAGGA-GATGGAGACTTGTACTTGTAAACTGGAG
1 GTGGAGACTTGTACTTGTATGGCTCCTTGAGGAGGAGGA-GGAGACTTGTACTTGTAGACTGGAG
56063 G
65 G
56064 GAAGACCCTT
Statistics
Matches: 163, Mismatches: 28, Indels: 25
0.75 0.13 0.12
Matches are distributed among these distances:
65 6 0.04
66 57 0.35
67 2 0.01
68 8 0.05
69 48 0.29
70 8 0.05
71 1 0.01
72 28 0.17
73 5 0.03
ACGTcount: A:0.25, C:0.11, G:0.36, T:0.29
Consensus pattern (67 bp):
GTGGAGACTTGTACTTGTATGGCTCCTTGAGGAGGAGGAGGAGACTTGTACTTGTAGACTGGAGG
AG
Found at i:57063 original size:17 final size:17
Alignment explanation
Indices: 57025--57066 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
57015 GGGGGTTTTG
57025 GTAAAAATGATTAAATA
1 GTAAAAATGATTAAATA
* *
57042 ATAAAAAGTGATTTAA-A
1 GTAAAAA-TGATTAAATA
57059 GTAAAAAT
1 GTAAAAAT
57067 TAAGAATGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
16 1 0.05
17 13 0.62
18 7 0.33
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.29
Consensus pattern (17 bp):
GTAAAAATGATTAAATA
Found at i:63259 original size:23 final size:22
Alignment explanation
Indices: 63202--63260 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 22
63192 TAAACTTAAA
*
63202 ATAAAATAAAAATGAAAACTTG
1 ATAAAATAGAAATGAAAACTTG
* *
63224 A-AAAGAAATGAAATGAAAACTTT
1 ATAAA-ATA-GAAATGAAAACTTG
63247 ATAAAACTAGAAAT
1 ATAAAA-TAGAAAT
63261 AAGAAGAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
21 3 0.10
22 3 0.10
23 19 0.66
24 4 0.14
ACGTcount: A:0.63, C:0.05, G:0.10, T:0.22
Consensus pattern (22 bp):
ATAAAATAGAAATGAAAACTTG
Found at i:63773 original size:24 final size:24
Alignment explanation
Indices: 63738--63785 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
63728 CATATAAGTG
63738 AATGAAAGTCTTCACGAGATGACT
1 AATGAAAGTCTTCACGAGATGACT
*
63762 AATGAAATTCTTCACGAGATGACT
1 AATGAAAGTCTTCACGAGATGACT
63786 CTACTTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.27
Consensus pattern (24 bp):
AATGAAAGTCTTCACGAGATGACT
Found at i:67644 original size:23 final size:23
Alignment explanation
Indices: 67618--67662 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
67608 ATAAATTGAC
*
67618 ATGTTTAAAAAAATATCAAAATA
1 ATGTGTAAAAAAATATCAAAATA
* *
67641 ATGTGTAAAAGAATTTCAAAAT
1 ATGTGTAAAAAAATATCAAAAT
67663 CTAAACTCCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.56, C:0.04, G:0.09, T:0.31
Consensus pattern (23 bp):
ATGTGTAAAAAAATATCAAAATA
Found at i:69975 original size:24 final size:24
Alignment explanation
Indices: 69921--69969 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
69911 ATATATAAGG
* *
69921 ACTTCAACTCGAAACATTGTAGCA
1 ACTTCAACTCGAAACACTATAGCA
*
69945 ACTTCAACTCGAGACACTATAGCA
1 ACTTCAACTCGAAACACTATAGCA
69969 A
1 A
69970 TATCAAGTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.39, C:0.27, G:0.12, T:0.22
Consensus pattern (24 bp):
ACTTCAACTCGAAACACTATAGCA
Found at i:71533 original size:17 final size:17
Alignment explanation
Indices: 71511--71543 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
71501 TGTGTAAAAA
71511 ACATAATATTAAAATAC
1 ACATAATATTAAAATAC
*
71528 ACATAATCTTAAAATA
1 ACATAATATTAAAATA
71544 GAAGCTTGTT
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:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (17 bp):
ACATAATATTAAAATAC
Found at i:79477 original size:18 final size:18
Alignment explanation
Indices: 79440--79482 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
79430 AAAACCCACT
*
79440 AAAAATGAAAAAATGAAA
1 AAAAATGAAAAAATAAAA
*
79458 AAAAATGAAAAAAAATAAA
1 AAAAATGAAAAAATA-AAA
79477 AAAAAT
1 AAAAAT
79483 AAGTTATGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.81, C:0.00, G:0.07, T:0.12
Consensus pattern (18 bp):
AAAAATGAAAAAATAAAA
Found at i:79484 original size:9 final size:10
Alignment explanation
Indices: 79447--79482 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
79437 ACTAAAAATG
79447 AAAAAATGAA
1 AAAAAATGAA
79457 AAAAAATGAA
1 AAAAAATGAA
79467 AAAAAAT-AA
1 AAAAAATGAA
79476 AAAAAAT
1 AAAAAAT
79483 AAGTTATGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 9 0.35
10 17 0.65
ACGTcount: A:0.83, C:0.00, G:0.06, T:0.11
Consensus pattern (10 bp):
AAAAAATGAA
Found at i:92750 original size:21 final size:21
Alignment explanation
Indices: 92724--92805 Score: 146
Period size: 21 Copynumber: 3.9 Consensus size: 21
92714 TGATTTATTA
92724 TTATGGATTTCAAGTTTGTTG
1 TTATGGATTTCAAGTTTGTTG
92745 TTATGGATTTCAAGTTTGTTG
1 TTATGGATTTCAAGTTTGTTG
* *
92766 TTATGGATTTCAAGTTTCTTA
1 TTATGGATTTCAAGTTTGTTG
92787 TTATGGATTTCAAGTTTGT
1 TTATGGATTTCAAGTTTGT
92806 GTCTTAATTA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 58 1.00
ACGTcount: A:0.21, C:0.06, G:0.21, T:0.52
Consensus pattern (21 bp):
TTATGGATTTCAAGTTTGTTG
Found at i:92879 original size:27 final size:27
Alignment explanation
Indices: 92849--92912 Score: 110
Period size: 27 Copynumber: 2.4 Consensus size: 27
92839 AAAGCTAAAT
*
92849 GATATTAAATTTAGGTGTTGTAGAGCA
1 GATATTAAATTTAGGTGTTGTAGAGAA
92876 GATATTAAATTTAGGTGTTGTAGAGAA
1 GATATTAAATTTAGGTGTTGTAGAGAA
*
92903 GAAATTAAAT
1 GATATTAAAT
92913 ATGCAAAATC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.39, C:0.02, G:0.23, T:0.36
Consensus pattern (27 bp):
GATATTAAATTTAGGTGTTGTAGAGAA
Found at i:93025 original size:42 final size:42
Alignment explanation
Indices: 92979--93276 Score: 260
Period size: 42 Copynumber: 7.0 Consensus size: 42
92969 AAAATGTCGA
* * * *
92979 TATAGGTCTGACCTTTTGCAGTGTTTGTTTGAAAAACACCGC
1 TATAGATCTGACCTTTTGCGGTGTTTGTTTCAAAAACGCCGC
* * * * *
93021 TATAGATCTAAACTTTAGCGGCGTTTGTTACAAAAACGCCGC
1 TATAGATCTGACCTTTTGCGGTGTTTGTTTCAAAAACGCCGC
* * * * *
93063 TATAGATCTGCCCTTTAGCGGCGTTT-ATTCAAAAATGCCGC
1 TATAGATCTGACCTTTTGCGGTGTTTGTTTCAAAAACGCCGC
* * * *
93104 TATAGATCTTTAGCTTTAGC-GTCGTTTG-TCCAAAAACGCCGC
1 TATAGATC-TGACCTTTTGCGGT-GTTTGTTTCAAAAACGCCGC
* ** *
93146 TATAGATCTCGACCGTTTGCGGCATTTGTTTCAAAAATGCCGC
1 TATAGATCT-GACCTTTTGCGGTGTTTGTTTCAAAAACGCCGC
* *
93189 TATAGATCCTGACCTTTTGCGGTGTTTGTTCCAAAAATGCCGC
1 TATAGAT-CTGACCTTTTGCGGTGTTTGTTTCAAAAACGCCGC
* * * * **
93232 TATAGATCCCGACCTTTTGCAGTATTTTTTTCTCAAACGCCGC
1 TATAGAT-CTGACCTTTTGCGGTGTTTGTTTCAAAAACGCCGC
93275 TA
1 TA
93277 ACTTTTGCGG
Statistics
Matches: 208, Mismatches: 41, Indels: 13
0.79 0.16 0.05
Matches are distributed among these distances:
41 22 0.11
42 98 0.47
43 86 0.41
44 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (42 bp):
TATAGATCTGACCTTTTGCGGTGTTTGTTTCAAAAACGCCGC
Found at i:93195 original size:85 final size:85
Alignment explanation
Indices: 93002--93251 Score: 285
Period size: 83 Copynumber: 3.0 Consensus size: 85
92992 TTTTGCAGTG
* ** * *
93002 TTTGTTTGAAAAACACCGCTATAGATCTAAACTTTAGCGGCGTTTGTTACAAAAACGCCGCTATA
1 TTTGTTTCAAAAATGCCGCTATAGATCTAAACTTTAGCGTCGTTTGTTCCAAAAACGCCGCTATA
*
93067 GATCT-G-CCCTTTAGCGGCG
66 GATCTCGACCCTTT-GCGGCA
* * *
93086 TTT-ATTCAAAAATGCCGCTATAGATCTTTAGCTTTAGCGTCGTTTG-TCCAAAAACGCCGCTAT
1 TTTGTTTCAAAAATGCCGCTATAGATC-TAAACTTTAGCGTCGTTTGTTCCAAAAACGCCGCTAT
*
93149 AGATCTCGACCGTTTGCGGCA
65 AGATCTCGACCCTTTGCGGCA
* * * *
93170 TTTGTTTCAAAAATGCCGCTATAGATCCTGACCTTTTGCGGT-GTTTGTTCCAAAAATGCCGCTA
1 TTTGTTTCAAAAATGCCGCTATAGAT-CTAAACTTTAGC-GTCGTTTGTTCCAAAAACGCCGCTA
* *
93234 TAGATCCCGACCTTTTGC
64 TAGATCTCGACCCTTTGC
93252 AGTATTTTTT
Statistics
Matches: 142, Mismatches: 17, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
83 41 0.29
84 28 0.20
85 39 0.27
86 34 0.24
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (85 bp):
TTTGTTTCAAAAATGCCGCTATAGATCTAAACTTTAGCGTCGTTTGTTCCAAAAACGCCGCTATA
GATCTCGACCCTTTGCGGCA
Found at i:93249 original size:43 final size:43
Alignment explanation
Indices: 92986--93251 Score: 263
Period size: 42 Copynumber: 6.3 Consensus size: 43
92976 CGATATAGGT
* * ** *
92986 CTGACCTTTTGCAGTGTTTGTTTGAAAAACACCGCTATAGAT-
1 CTGACCTTTTGCGGCGTTTGTTCCAAAAACGCCGCTATAGATC
* * * *
93028 CTAAACTTTAGCGGCGTTTGTTACAAAAACGCCGCTATAGAT-
1 CTGACCTTTTGCGGCGTTTGTTCCAAAAACGCCGCTATAGATC
* * * *
93070 CTGCCCTTTAGCGGCGTTTATT-CAAAAATGCCGCTATAGATC
1 CTGACCTTTTGCGGCGTTTGTTCCAAAAACGCCGCTATAGATC
* * * * *
93112 TTTAGCTTTAGCGTCGTTTG-TCCAAAAACGCCGCTATAGAT-
1 CTGACCTTTTGCGGCGTTTGTTCCAAAAACGCCGCTATAGATC
* * * *
93153 CTCGACCGTTTGCGGCATTTGTTTCAAAAATGCCGCTATAGATC
1 CT-GACCTTTTGCGGCGTTTGTTCCAAAAACGCCGCTATAGATC
* *
93197 CTGACCTTTTGCGGTGTTTGTTCCAAAAATGCCGCTATAGATC
1 CTGACCTTTTGCGGCGTTTGTTCCAAAAACGCCGCTATAGATC
*
93240 CCGACCTTTTGC
1 CTGACCTTTTGC
93252 AGTATTTTTT
Statistics
Matches: 185, Mismatches: 34, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
41 20 0.11
42 96 0.52
43 67 0.36
44 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.33
Consensus pattern (43 bp):
CTGACCTTTTGCGGCGTTTGTTCCAAAAACGCCGCTATAGATC
Found at i:93647 original size:28 final size:30
Alignment explanation
Indices: 93605--93670 Score: 109
Period size: 29 Copynumber: 2.2 Consensus size: 30
93595 TAGAGATGGC
93605 ATATTAGAGT-TTTTTCAAAATACTATGT-
1 ATATTAGAGTGTTTTTCAAAATACTATGTA
93633 ATATTAGAGTGTTTTTCAAAATACTATGTCA
1 ATATTAGAGTGTTTTTCAAAATACTATGT-A
93664 ATATTAG
1 ATATTAG
93671 TATCGACTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
28 10 0.29
29 18 0.51
31 7 0.20
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.44
Consensus pattern (30 bp):
ATATTAGAGTGTTTTTCAAAATACTATGTA
Found at i:97930 original size:13 final size:13
Alignment explanation
Indices: 97912--97941 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
97902 GATACTGCTT
97912 TCTCATGCCCTTA
1 TCTCATGCCCTTA
*
97925 TCTCATGTCCTTA
1 TCTCATGCCCTTA
97938 TCTC
1 TCTC
97942 TTTCCCAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.13, C:0.37, G:0.07, T:0.43
Consensus pattern (13 bp):
TCTCATGCCCTTA
Found at i:106453 original size:66 final size:66
Alignment explanation
Indices: 106331--106457 Score: 173
Period size: 66 Copynumber: 1.9 Consensus size: 66
106321 ATGAAGACTC
* *
106331 TGGCAGGTTCAGTCGCTGTGGGTAATTCCTTGTATAGGTTCTGCACCGACTAGTAATTCCTATTT
1 TGGCAGGTTCAGTCGCTGTGGGTAATTCCTTGTATAGGTTCAGCACCAACTAGTAATTCCTATTT
106396 T
66 T
* * * * * * *
106397 TGGCAGGTTCAGTTGTTGTTGGTAATTCCTTTTATAGGTTCAGCACTAATTGGTAATTCCT
1 TGGCAGGTTCAGTCGCTGTGGGTAATTCCTTGTATAGGTTCAGCACCAACTAGTAATTCCT
106458 TATGGACCTA
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
66 52 1.00
ACGTcount: A:0.19, C:0.17, G:0.24, T:0.40
Consensus pattern (66 bp):
TGGCAGGTTCAGTCGCTGTGGGTAATTCCTTGTATAGGTTCAGCACCAACTAGTAATTCCTATTT
T
Found at i:112474 original size:18 final size:18
Alignment explanation
Indices: 112451--112487 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
112441 GTTTGGAGAA
112451 GTGTTTGGTGTGCTAAGG
1 GTGTTTGGTGTGCTAAGG
112469 GTGTTTGGTGTGCTAAGG
1 GTGTTTGGTGTGCTAAGG
112487 G
1 G
112488 CCTTATAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.11, C:0.05, G:0.46, T:0.38
Consensus pattern (18 bp):
GTGTTTGGTGTGCTAAGG
Found at i:114599 original size:20 final size:20
Alignment explanation
Indices: 114574--114614 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
114564 TATCTAATCT
114574 ATAATA-TAAAGAATAAATAA
1 ATAATATTAAA-AATAAATAA
*
114594 ATAATATTATAAATAAATAA
1 ATAATATTAAAAATAAATAA
114614 A
1 A
114615 AAAGGAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 16 0.84
21 3 0.16
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (20 bp):
ATAATATTAAAAATAAATAA
Found at i:116970 original size:21 final size:19
Alignment explanation
Indices: 116932--116977 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
116922 AATTAATCCT
116932 ACTAAGTATTAAAGCTAAGA
1 ACTAA-TATTAAAGCTAAGA
116952 ACTAATATTAAGGAGCTAAGA
1 ACTAATATTAA--AGCTAAGA
116973 A-TAAT
1 ACTAAT
116978 GATTCAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.50, C:0.09, G:0.15, T:0.26
Consensus pattern (19 bp):
ACTAATATTAAAGCTAAGA
Found at i:127457 original size:14 final size:14
Alignment explanation
Indices: 127438--127464 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
127428 GATAAATCTT
127438 CTCCTCACATTCTG
1 CTCCTCACATTCTG
127452 CTCCTCACATTCT
1 CTCCTCACATTCT
127465 CATCTGCTCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.44, G:0.04, T:0.37
Consensus pattern (14 bp):
CTCCTCACATTCTG
Found at i:128797 original size:19 final size:17
Alignment explanation
Indices: 128773--128814 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
128763 TCCATTAGGG
*
128773 TATTTTTTTAGTTTTTTTT
1 TATTTTTTT-G-TATTTTT
128792 TATTTTTTTGTATTTTT
1 TATTTTTTTGTATTTTT
128809 TATTTT
1 TATTTT
128815 GTGTAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 12 0.55
18 1 0.05
19 9 0.41
ACGTcount: A:0.12, C:0.00, G:0.05, T:0.83
Consensus pattern (17 bp):
TATTTTTTTGTATTTTT
Found at i:128819 original size:16 final size:17
Alignment explanation
Indices: 128787--128819 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
128777 TTTTTAGTTT
*
128787 TTTTTTATTTTTTTGTA
1 TTTTTTATTTTTGTGTA
128804 TTTTTTA-TTTTGTGTA
1 TTTTTTATTTTTGTGTA
128820 ATATAAATCG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.12, C:0.00, G:0.09, T:0.79
Consensus pattern (17 bp):
TTTTTTATTTTTGTGTA
Found at i:129579 original size:2 final size:2
Alignment explanation
Indices: 129572--129693 Score: 244
Period size: 2 Copynumber: 61.0 Consensus size: 2
129562 ATTATACTTG
129572 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
129614 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
129656 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
129694 ATTTAAAAAT
Statistics
Matches: 120, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 120 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:138341 original size:59 final size:59
Alignment explanation
Indices: 138249--138369 Score: 188
Period size: 59 Copynumber: 2.1 Consensus size: 59
138239 GGAGGGTTGG
* * *
138249 TTAGAGCCATATTGTTGAGTTTAACTTTTCATTGCAACTAGGAGGGTTCGATAGGACAC
1 TTAGAGCCATATTATTGAGTTTAACTTTTCATTGCAACTAGGAGGGCTCGAAAGGACAC
* * *
138308 TTAGAGCCATATTATTGTGTTTACCTTTTCATTGCGACTAGGAGGGCTCGAAAGGACAC
1 TTAGAGCCATATTATTGAGTTTAACTTTTCATTGCAACTAGGAGGGCTCGAAAGGACAC
138367 TTA
1 TTA
138370 TCCATCTATT
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (59 bp):
TTAGAGCCATATTATTGAGTTTAACTTTTCATTGCAACTAGGAGGGCTCGAAAGGACAC
Found at i:142756 original size:60 final size:59
Alignment explanation
Indices: 142643--142764 Score: 181
Period size: 60 Copynumber: 2.1 Consensus size: 59
142633 GGAGGTTTGG
* *
142643 TTAGAGCCATATTATCAAGTTTGCCTTTTAATTGCGACTAGGAGGGTTCGATAGGACAC
1 TTAGAGCCATATTATCAAGTTTGCCTTTTAATTGCAACTAGGAGGGCTCGATAGGACAC
** * *
142702 TTAGAGCCATATTATCGTGTTTGCATTTTTCATTGCAACTAGGAGGGCTCGATAGGACAC
1 TTAGAGCCATATTATCAAGTTTGC-CTTTTAATTGCAACTAGGAGGGCTCGATAGGACAC
142762 TTA
1 TTA
142765 TCCATCTATT
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
59 22 0.39
60 34 0.61
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (59 bp):
TTAGAGCCATATTATCAAGTTTGCCTTTTAATTGCAACTAGGAGGGCTCGATAGGACAC
Found at i:145464 original size:2 final size:2
Alignment explanation
Indices: 145457--145481 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
145447 CTCTAACCAT
145457 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
145482 TTCTTCAGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:147610 original size:52 final size:51
Alignment explanation
Indices: 147546--147648 Score: 134
Period size: 51 Copynumber: 2.0 Consensus size: 51
147536 ACATAACAAC
* *
147546 TAGTGACTAAAATGAACTAAAATAAAAAAATAGTAGCCAAAACAGAAATAAA
1 TAGTGACCAAAATGAA-TAAAATAAAAAAACAGTAGCCAAAACAGAAATAAA
* ** * *
147598 TAGTGACCAAAATGCATAAAATTGAAGAACAGTAGCCAAATCAGAAATAAA
1 TAGTGACCAAAATGAATAAAATAAAAAAACAGTAGCCAAAACAGAAATAAA
147649 CGGTGACTAA
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
51 30 0.68
52 14 0.32
ACGTcount: A:0.57, C:0.12, G:0.14, T:0.17
Consensus pattern (51 bp):
TAGTGACCAAAATGAATAAAATAAAAAAACAGTAGCCAAAACAGAAATAAA
Found at i:147634 original size:51 final size:50
Alignment explanation
Indices: 147577--147673 Score: 133
Period size: 51 Copynumber: 1.9 Consensus size: 50
147567 ATAAAAAAAT
*
147577 AGTAGCCAAAACAGAAATAAATAGTGACCAAAATGCATA-AAATTGAAGAAC
1 AGTAGCCAAAACAGAAATAAACAGTGACCAAAAT--ATATAAATTGAAGAAC
* * *
147628 AGTAGCCAAATCAGAAATAAACGGTGACTAAAATATATAAATTGAA
1 AGTAGCCAAAACAGAAATAAACAGTGACCAAAATATATAAATTGAA
147674 AGTATCACGT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
49 3 0.07
50 8 0.20
51 30 0.73
ACGTcount: A:0.54, C:0.12, G:0.15, T:0.19
Consensus pattern (50 bp):
AGTAGCCAAAACAGAAATAAACAGTGACCAAAATATATAAATTGAAGAAC
Found at i:148972 original size:67 final size:67
Alignment explanation
Indices: 148861--149020 Score: 203
Period size: 67 Copynumber: 2.4 Consensus size: 67
148851 AAATTTCGGC
* * * *
148861 TTCAAGTGAAACCGTCTCAAGCGAGATAAAACTATATTTCGAGAGAAAAAATCTCTAAGGCTTAT
1 TTCAAGAGAAAACGTCTCAAGCGAGACAAAACTATATTTCGAGAGAAAAAATCTCAAAGGCTTAT
148926 GT
66 GT
* * * * * * *
148928 TTCAAGAGAAAATGTCTCAAGCGAGACGAAACTTTGTTTGGAGAGAAAGAATCTCAAAGGTTTAT
1 TTCAAGAGAAAACGTCTCAAGCGAGACAAAACTATATTTCGAGAGAAAAAATCTCAAAGGCTTAT
148993 GT
66 GT
* *
148995 TTCAAGAGAAACCATCTCAAGCGAGA
1 TTCAAGAGAAAACGTCTCAAGCGAGA
149021 AATTTTTTTT
Statistics
Matches: 79, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
67 79 1.00
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.25
Consensus pattern (67 bp):
TTCAAGAGAAAACGTCTCAAGCGAGACAAAACTATATTTCGAGAGAAAAAATCTCAAAGGCTTAT
GT
Found at i:155619 original size:5 final size:5
Alignment explanation
Indices: 155609--155633 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
155599 CTCATGTTTA
155609 TGATT TGATT TGATT TGATT TGATT
1 TGATT TGATT TGATT TGATT TGATT
155634 GTGAGCCTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.60
Consensus pattern (5 bp):
TGATT
Found at i:157099 original size:34 final size:34
Alignment explanation
Indices: 157056--157124 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
157046 TCCTTCGGGT
157056 CATCAGTAAGTCTTCCGAGCATGATGATCAAATC
1 CATCAGTAAGTCTTCCGAGCATGATGATCAAATC
* * *
157090 CATCAGTAAGTCTTTCGAGCATGATGCTTAAATC
1 CATCAGTAAGTCTTCCGAGCATGATGATCAAATC
157124 C
1 C
157125 TTTGGGCCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.29
Consensus pattern (34 bp):
CATCAGTAAGTCTTCCGAGCATGATGATCAAATC
Found at i:157188 original size:79 final size:79
Alignment explanation
Indices: 157084--157250 Score: 226
Period size: 79 Copynumber: 2.1 Consensus size: 79
157074 GCATGATGAT
* * * * ** *
157084 CAAATCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTTGGGCCATCTTAAGCCTTCACC
1 CAAATCCATCAGTAAGCCTTCCGAGCATGACGATTAAATCCTCCGGGCCATCTTAAGCCTTCAAC
*
157149 AAAGTGTAGTGAAG
66 AAAGAGTAGTGAAG
* * *
157163 TAAATCCATCAGTAAGCCTTCCGAGCATGACGATTAAGTCCTCCGGGCCATTTTAAGCCTTCAAC
1 CAAATCCATCAGTAAGCCTTCCGAGCATGACGATTAAATCCTCCGGGCCATCTTAAGCCTTCAAC
*
157228 GAAGAGTAGTGAAG
66 AAAGAGTAGTGAAG
157242 CAAATCCAT
1 CAAATCCAT
157251 TTTAAGCCTT
Statistics
Matches: 75, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
79 75 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (79 bp):
CAAATCCATCAGTAAGCCTTCCGAGCATGACGATTAAATCCTCCGGGCCATCTTAAGCCTTCAAC
AAAGAGTAGTGAAG
Found at i:157284 original size:37 final size:37
Alignment explanation
Indices: 157210--157287 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
157200 GTCCTCCGGG
*
157210 CCATTTTAAGCCTTCAACGAAGAGTAGTGAAGCAAAT
1 CCATTTTAAGCCTTCAACGAAGAGTAGTGAAGAAAAT
* **
157247 CCATTTTAAGCCTTCATC-AGAGAGTAGTGTTGAAAAT
1 CCATTTTAAGCCTTCAACGA-AGAGTAGTGAAGAAAAT
157284 CCAT
1 CCAT
157288 CAGTAAGCCT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
36 1 0.03
37 35 0.97
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (37 bp):
CCATTTTAAGCCTTCAACGAAGAGTAGTGAAGAAAAT
Found at i:157286 original size:116 final size:116
Alignment explanation
Indices: 157131--157363 Score: 342
Period size: 116 Copynumber: 2.0 Consensus size: 116
157121 ATCCTTTGGG
* *
157131 CCATCTTAAGCCTTCACCAAAGTGTAGTGAAGTAAATCCATCAGTAAGCCTTCCGAGCATGACGA
1 CCATCTTAAGCCTTCACCAAAGAGTAGTGAAGAAAATCCATCAGTAAGCCTTCCGAGCATGACGA
* * *
157196 TTAAGTCCTCCGGGCCATTTTAAGCCTTCAAC-GAAGAGTAGTGAAGCAAAT
66 TGAAGTCCTCCGGGCCATCTTAAGCCTTC-ACGGAAGAATAGTGAAGCAAAT
* * * ** *
157247 CCATTTTAAGCCTTCATCAGAGAGTAGTGTTGAAAATCCATCAGTAAGCCTTCTGAGCATGACGA
1 CCATCTTAAGCCTTCACCAAAGAGTAGTGAAGAAAATCCATCAGTAAGCCTTCCGAGCATGACGA
*
157312 TGAAGTCCTCTGGGCCATCTTAAGCCTTCACGGAAGAATAGTGAAGCAAAT
66 TGAAGTCCTCCGGGCCATCTTAAGCCTTCACGGAAGAATAGTGAAGCAAAT
157363 C
1 C
157364 TATAATTTGA
Statistics
Matches: 104, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
115 2 0.02
116 102 0.98
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (116 bp):
CCATCTTAAGCCTTCACCAAAGAGTAGTGAAGAAAATCCATCAGTAAGCCTTCCGAGCATGACGA
TGAAGTCCTCCGGGCCATCTTAAGCCTTCACGGAAGAATAGTGAAGCAAAT
Found at i:157568 original size:134 final size:134
Alignment explanation
Indices: 157371--157979 Score: 918
Period size: 134 Copynumber: 4.6 Consensus size: 134
157361 ATCTATAATT
* * * *
157371 TGATATTCCCTTCAGAAGAAGTGAAACAAATCACTCTCTTTCAGGATTTGATATTCCCTGAGTGA
1 TGATATTCCCTTCAGAAGAAGCGGAACAGATCACTCTCTTTCAAGATTTGATATTCCCTGAGTGA
157436 CAGCGGAACAAGTCTACCATGATTCAATCTTCCCTGAGTGACAGCGGAATGGATCAACTCATCCA
66 CAGCGGAACAAGTCTACCATGATTCAATCTTCCCTGAGTGACAGCGGAATGGATCAACTCATCCA
157501 GATC
131 GATC
* * * *
157505 TAATATTCCCTTCAGAATAAGCCGAACAGATCACTCTTTTTCAAGATTTGATATTCCCTGAGTGA
1 TGATATTCCCTTCAGAAGAAGCGGAACAGATCACTCTCTTTCAAGATTTGATATTCCCTGAGTGA
* * * *
157570 CAGCGGAACAAGTCTACCATGATTCAATCTTCCCTGAGTAACATCTGAATAGATCAACTCATCCA
66 CAGCGGAACAAGTCTACCATGATTCAATCTTCCCTGAGTGACAGCGGAATGGATCAACTCATCCA
*
157635 TATC
131 GATC
* * *
157639 TGATATTCCCTTCAGAAGAAGTGGAACAGATCACTATTTTTCAAGATTTGATATTCCCTGAGTGA
1 TGATATTCCCTTCAGAAGAAGCGGAACAGATCACTCTCTTTCAAGATTTGATATTCCCTGAGTGA
*
157704 CAG-GGAACAAGTCTACCATGATTCAATTTTCCCTGAGTGACAGCGGAATGGATCAACTCATCCA
66 CAGCGGAACAAGTCTACCATGATTCAATCTTCCCTGAGTGACAGCGGAATGGATCAACTCATCCA
157768 GATC
131 GATC
* * *
157772 TGATATTCCCTTCAGAAGAGGCGGAACAGATCATTCTCTTCCAAGATTTGATATTCCCTGAGTGA
1 TGATATTCCCTTCAGAAGAAGCGGAACAGATCACTCTCTTTCAAGATTTGATATTCCCTGAGTGA
* *
157837 CAGCGGAACAAGTCTACAACGATTCAATCTTCCCTGAGTGACAGCGGAATGGATCAACTCATCCA
66 CAGCGGAACAAGTCTACCATGATTCAATCTTCCCTGAGTGACAGCGGAATGGATCAACTCATCCA
157902 GATC
131 GATC
* * * * * * *
157906 TGATATTCCCTTCAGAAGAATCGGAATAGATAACTCATC--CCTAGATCTGATATTCCCCGAGTG
1 TGATATTCCCTTCAGAAGAAGCGGAACAGATCACTC-TCTTTCAAGATTTGATATTCCCTGAGTG
*
157969 ACAGCAGAACA
65 ACAGCGGAACA
157980 TATCCCTTAT
Statistics
Matches: 431, Mismatches: 42, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
133 152 0.35
134 277 0.64
135 2 0.00
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (134 bp):
TGATATTCCCTTCAGAAGAAGCGGAACAGATCACTCTCTTTCAAGATTTGATATTCCCTGAGTGA
CAGCGGAACAAGTCTACCATGATTCAATCTTCCCTGAGTGACAGCGGAATGGATCAACTCATCCA
GATC
Found at i:157847 original size:267 final size:268
Alignment explanation
Indices: 157371--157925 Score: 923
Period size: 267 Copynumber: 2.1 Consensus size: 268
157361 ATCTATAATT
* *
157371 TGATATTCCCTTCAGAAGAAGTGAAACAAATCACTCTCTTTCAGGATTTGATATTCCCTGAGTGA
1 TGATATTCCCTTCAGAAGAAGTGAAACAAATCACTATCTTTCAAGATTTGATATTCCCTGAGTGA
157436 CAGCGGAACAAGTCTACCATGATTCAATCTTCCCTGAGTGACAGCGGAATGGATCAACTCATCCA
66 CAGCGGAACAAGTCTACCATGATTCAATCTTCCCTGAGTGACAGCGGAATGGATCAACTCATCCA
* * *
157501 GATCTAATATTCCCTTCAGAATAAGCCGAACAGATCACTCTTTTTCAAGATTTGATATTCCCTGA
131 GATCTAATATTCCCTTCAGAAGAAGCCGAACAGATCACTCTCTTCCAAGATTTGATATTCCCTGA
* * * *
157566 GTGACAGCGGAACAAGTCTACCATGATTCAATCTTCCCTGAGTAACATCTGAATAGATCAACTCA
196 GTGACAGCGGAACAAGTCTACAACGATTCAATCTTCCCTGAGTAACAGCGGAATAGATCAACTCA
*
157631 TCCATATC
261 TCCAGATC
* * *
157639 TGATATTCCCTTCAGAAGAAGTGGAACAGATCACTATTTTTCAAGATTTGATATTCCCTGAGTGA
1 TGATATTCCCTTCAGAAGAAGTGAAACAAATCACTATCTTTCAAGATTTGATATTCCCTGAGTGA
*
157704 CAG-GGAACAAGTCTACCATGATTCAATTTTCCCTGAGTGACAGCGGAATGGATCAACTCATCCA
66 CAGCGGAACAAGTCTACCATGATTCAATCTTCCCTGAGTGACAGCGGAATGGATCAACTCATCCA
* * * *
157768 GATCTGATATTCCCTTCAGAAGAGGCGGAACAGATCATTCTCTTCCAAGATTTGATATTCCCTGA
131 GATCTAATATTCCCTTCAGAAGAAGCCGAACAGATCACTCTCTTCCAAGATTTGATATTCCCTGA
* *
157833 GTGACAGCGGAACAAGTCTACAACGATTCAATCTTCCCTGAGTGACAGCGGAATGGATCAACTCA
196 GTGACAGCGGAACAAGTCTACAACGATTCAATCTTCCCTGAGTAACAGCGGAATAGATCAACTCA
157898 TCCAGATC
261 TCCAGATC
157906 TGATATTCCCTTCAGAAGAA
1 TGATATTCCCTTCAGAAGAA
157926 TCGGAATAGA
Statistics
Matches: 267, Mismatches: 20, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
267 204 0.76
268 63 0.24
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (268 bp):
TGATATTCCCTTCAGAAGAAGTGAAACAAATCACTATCTTTCAAGATTTGATATTCCCTGAGTGA
CAGCGGAACAAGTCTACCATGATTCAATCTTCCCTGAGTGACAGCGGAATGGATCAACTCATCCA
GATCTAATATTCCCTTCAGAAGAAGCCGAACAGATCACTCTCTTCCAAGATTTGATATTCCCTGA
GTGACAGCGGAACAAGTCTACAACGATTCAATCTTCCCTGAGTAACAGCGGAATAGATCAACTCA
TCCAGATC
Found at i:163608 original size:10 final size:10
Alignment explanation
Indices: 163595--163627 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
163585 AAAATGAAGT
163595 AAATAAATTA
1 AAATAAATTA
*
163605 AAATAAAGT-
1 AAATAAATTA
163614 AAATAAATTA
1 AAATAAATTA
163624 AAAT
1 AAAT
163628 GAAAATGAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
9 8 0.40
10 12 0.60
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (10 bp):
AAATAAATTA
Found at i:163608 original size:19 final size:19
Alignment explanation
Indices: 163580--163630 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
163570 CCTTCACATT
163580 TAAA-TAAAATGAAGTAAA
1 TAAATTAAAATGAAGTAAA
*
163598 TAAATTAAAATAAAGTAAA
1 TAAATTAAAATGAAGTAAA
163617 TAAATTAAAATGAA
1 TAAATTAAAATGAA
163631 AATGAACTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
18 4 0.13
19 26 0.87
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.25
Consensus pattern (19 bp):
TAAATTAAAATGAAGTAAA
Found at i:165203 original size:2 final size:2
Alignment explanation
Indices: 165183--165278 Score: 171
Period size: 2 Copynumber: 49.5 Consensus size: 2
165173 ACTATATAGT
165183 TA TA -A TA T- TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
165222 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
165264 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
165279 TCCACATTTA
Statistics
Matches: 91, Mismatches: 0, Indels: 6
0.94 0.00 0.06
Matches are distributed among these distances:
1 3 0.03
2 88 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:166029 original size:65 final size:66
Alignment explanation
Indices: 165917--166040 Score: 169
Period size: 65 Copynumber: 1.9 Consensus size: 66
165907 GCATCATCCG
* * * *
165917 AAAGGTGCCTCAAAAATTCATGATATTTCATCAAAAAAGGTGTCTCCAAAAAACATGTTTTATCT
1 AAAGGTACCTCAAAAAGTCATAATATTTCATCAAAAAAGGTGCCTCCAAAAAACATGTTTTATCT
165982 A
66 A
* * * *
165983 AAAGGTACCTCCAAAAGTCATAATGTTTTAT-AAAAAAGGTGCCTCCAAAAGACATGTT
1 AAAGGTACCTCAAAAAGTCATAATATTTCATCAAAAAAGGTGCCTCCAAAAAACATGTT
166041 GTTTCATCCA
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
65 25 0.50
66 25 0.50
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (66 bp):
AAAGGTACCTCAAAAAGTCATAATATTTCATCAAAAAAGGTGCCTCCAAAAAACATGTTTTATCT
A
Found at i:166080 original size:34 final size:34
Alignment explanation
Indices: 165917--166083 Score: 135
Period size: 34 Copynumber: 5.0 Consensus size: 34
165907 GCATCATCCG
* * * *
165917 AAAGGTGCCTCAAAAATTCATGATATTTCATCAAA
1 AAAGGTGCCTCCAAAAGTCATGATGTTTTATC-AA
* ** *
165952 AAAGGTGTCTCCAAAA---AACATGTTTTATCTA
1 AAAGGTGCCTCCAAAAGTCATGATGTTTTATCAA
* * *
165983 AAAGGTACCTCCAAAAGTCATAATGTTTTATAAA
1 AAAGGTGCCTCCAAAAGTCATGATGTTTTATCAA
* * * *
166017 AAAGGTGCCTCCAAAAGACATGTTGTTTCATCCA
1 AAAGGTGCCTCCAAAAGTCATGATGTTTTATCAA
* *
166051 AATGGTGCCTCC-AAAGTTATGATGTTTTCATCA
1 AAAGGTGCCTCCAAAAGTCATGATGTTTT-ATCA
166084 CACATTTTCA
Statistics
Matches: 102, Mismatches: 26, Indels: 9
0.74 0.19 0.07
Matches are distributed among these distances:
31 15 0.15
32 9 0.09
33 12 0.12
34 52 0.51
35 14 0.14
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (34 bp):
AAAGGTGCCTCCAAAAGTCATGATGTTTTATCAA
Found at i:167026 original size:29 final size:29
Alignment explanation
Indices: 166959--167138 Score: 177
Period size: 29 Copynumber: 6.2 Consensus size: 29
166949 CTGTACACCG
* * *
166959 GGTGGTATTTTGGTAATTTTTTTCAAAAAT
1 GGTGATATTTTGGTAATTATTTT-GAAAAT
166989 GGTGATATTTTGGTAATTATTTTGAAAAT
1 GGTGATATTTTGGTAATTATTTTGAAAAT
* * *
167018 GGTGTTATTTTCGTAATT-TTTTTAAAA-
1 GGTGATATTTTGGTAATTATTTTGAAAAT
* * * *
167045 GTTGATATTTTTGTTAATT-TTTTTAAAAA
1 GGTGATA-TTTTGGTAATTATTTTGAAAAT
** *
167074 AATGATAGTTTGGTAATTATTTTGAAAAT
1 GGTGATATTTTGGTAATTATTTTGAAAAT
* * *
167103 GATGATATTTTAGAAATTATTTTGAAAAT
1 GGTGATATTTTGGTAATTATTTTGAAAAT
167132 GGTGATA
1 GGTGATA
167139 ATTGTGTAAA
Statistics
Matches: 126, Mismatches: 21, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
27 5 0.04
28 35 0.28
29 65 0.52
30 21 0.17
ACGTcount: A:0.32, C:0.01, G:0.17, T:0.49
Consensus pattern (29 bp):
GGTGATATTTTGGTAATTATTTTGAAAAT
Found at i:167076 original size:59 final size:58
Alignment explanation
Indices: 166959--167135 Score: 162
Period size: 57 Copynumber: 3.1 Consensus size: 58
166949 CTGTACACCG
* *
166959 GGTGGTATTTTGGTAATTTTTTTCAAAAATGGTGATATTTTGGTAATTATTTTGAAAAT
1 GGTGGTATTTTCGTAATTTTTTT-AAAAATGGTGATATTTTGGTAATTATTTTAAAAAT
* * * *
167018 GGTGTTATTTTCGTAATTTTTTT-AAAA-GTTGATATTTTTGTTAATTTTTTTAAAAA-
1 GGTGGTATTTTCGTAATTTTTTTAAAAATGGTGATA-TTTTGGTAATTATTTTAAAAAT
** * * * * * * * * *
167074 AATGATAGTTTGGTAATTATTTTGAAAATGATGATATTTTAGAAATTATTTTGAAAAT
1 GGTGGTATTTTCGTAATTTTTTTAAAAATGGTGATATTTTGGTAATTATTTTAAAAAT
167132 GGTG
1 GGTG
167136 ATAATTGTGT
Statistics
Matches: 94, Mismatches: 20, Indels: 9
0.76 0.16 0.07
Matches are distributed among these distances:
56 23 0.24
57 42 0.45
58 8 0.09
59 21 0.22
ACGTcount: A:0.32, C:0.01, G:0.18, T:0.50
Consensus pattern (58 bp):
GGTGGTATTTTCGTAATTTTTTTAAAAATGGTGATATTTTGGTAATTATTTTAAAAAT
Found at i:167085 original size:28 final size:28
Alignment explanation
Indices: 166967--167105 Score: 88
Period size: 28 Copynumber: 4.9 Consensus size: 28
166957 CGGGTGGTAT
*
166967 TTTGGTAATTTTTTTCAAAAATGGTGATAT-
1 TTTGGTAATTTTTTT-AAAAA--ATGATATG
* ** *
166997 TTTGGTAATTATTTTGAAAATGGTGTTAT-
1 TTTGGTAATT-TTTTTAAAA-AATGATATG
* ** *
167026 TTTCGTAATTTTTTTAAAAGTTGATATT
1 TTTGGTAATTTTTTTAAAAAATGATATG
*
167054 TTTGTTAATTTTTTTAAAAAAATGATA-G
1 TTTGGTAATTTTTTT-AAAAAATGATATG
* *
167082 TTTGGTAATTATTTT-GAAAATGAT
1 TTTGGTAATTTTTTTAAAAAATGAT
167106 GATATTTTAG
Statistics
Matches: 90, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
26 8 0.09
27 6 0.07
28 34 0.38
29 24 0.27
30 14 0.16
31 4 0.04
ACGTcount: A:0.32, C:0.01, G:0.15, T:0.52
Consensus pattern (28 bp):
TTTGGTAATTTTTTTAAAAAATGATATG
Found at i:167863 original size:24 final size:24
Alignment explanation
Indices: 167827--167902 Score: 73
Period size: 24 Copynumber: 3.2 Consensus size: 24
167817 TATCTTATTT
*
167827 TTGACAAG-ATTTTGATATGATAC
1 TTGACATGAATTTTGATATGATAC
* *
167850 TTGACTTGAATTTTTATATGATAC
1 TTGACATGAATTTTGATATGATAC
* * * * *
167874 ATGACATGGATTCTGATCTGCTAC
1 TTGACATGAATTTTGATATGATAC
167898 TTGAC
1 TTGAC
167903 CTAAATTGTG
Statistics
Matches: 41, Mismatches: 11, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
23 6 0.15
24 35 0.85
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.41
Consensus pattern (24 bp):
TTGACATGAATTTTGATATGATAC
Found at i:173698 original size:27 final size:28
Alignment explanation
Indices: 173647--173728 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
173637 GGTATTTTGG
* * *
173647 TAATTATTTTGAAAATAGTGCTATTTTCA
1 TAATTTTTTTTAAAA-AGTGATATTTTCA
*
173676 TAA-TTTTTTT-AAAAGTTGATATTTTCG
1 TAATTTTTTTTAAAAAG-TGATATTTTCA
173703 TAATTTTTTTTAAAAAGTGATATTTT
1 TAATTTTTTTTAAAAAGTGATATTTT
173729 GGTAATTGTT
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
26 2 0.04
27 15 0.33
28 21 0.46
29 8 0.17
ACGTcount: A:0.33, C:0.04, G:0.10, T:0.54
Consensus pattern (28 bp):
TAATTTTTTTTAAAAAGTGATATTTTCA
Found at i:173805 original size:29 final size:28
Alignment explanation
Indices: 173611--173805 Score: 173
Period size: 29 Copynumber: 6.9 Consensus size: 28
173601 GATTGGGTGG
* * *
173611 TATTTTTGTAATTA-TTTCAAAATGGTGG
1 TATTTTAGTAATTATTTTGAAAAT-GTGC
*
173639 TATTTTGGTAATTATTTTGAAAATAGTGC
1 TATTTTAGTAATTATTTTGAAAAT-GTGC
* *
173668 TATTTTCA-TAATT-TTTTTAAAA-GTTGA
1 TATTTT-AGTAATTATTTTGAAAATG-TGC
* * * * *
173695 TATTTTCGTAATTTTTTTTAAAAAGTGA
1 TATTTTAGTAATTATTTTGAAAATGTGC
* *
173723 TATTTTGGTAATTGTTTTGAAAATGGTGC
1 TATTTTAGTAATTATTTTGAAAAT-GTGC
*
173752 TATTTTAGAAATTATTTTGAAAATGTTGC
1 TATTTTAGTAATTATTTTGAAAATG-TGC
*
173781 TATTTTAGAAATTATTTTGAAAATG
1 TATTTTAGTAATTATTTTGAAAATG
173806 GTGATAATTG
Statistics
Matches: 143, Mismatches: 16, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
26 1 0.01
27 13 0.09
28 54 0.38
29 75 0.52
ACGTcount: A:0.32, C:0.03, G:0.15, T:0.50
Consensus pattern (28 bp):
TATTTTAGTAATTATTTTGAAAATGTGC
Found at i:174573 original size:24 final size:25
Alignment explanation
Indices: 174521--174578 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 25
174511 ATTTTTGAAG
*
174521 GGATTTTGATATGATACTTGACTAT
1 GGATTTTGATATGATACATGACTAT
*
174546 -GATTTTTATATGATACATGAC-AT
1 GGATTTTGATATGATACATGACTAT
*
174569 GGATTATGAT
1 GGATTTTGAT
174579 CTGCTACTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
23 2 0.07
24 26 0.93
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.43
Consensus pattern (25 bp):
GGATTTTGATATGATACATGACTAT
Found at i:178763 original size:19 final size:20
Alignment explanation
Indices: 178691--178764 Score: 69
Period size: 22 Copynumber: 3.6 Consensus size: 20
178681 CGATGTTGCT
* * *
178691 TGGTATTGATACCCTTACCA
1 TGGTATCGATACCCCTACTA
178711 TGGTATCGATACTACCCTACTA
1 TGGTATCGATAC--CCCTACTA
* * *
178733 TGGTACCAATACCCCT-TTA
1 TGGTATCGATACCCCTACTA
178752 TGGTATCGATACC
1 TGGTATCGATACC
178765 GAAATTAGAT
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
19 13 0.30
20 15 0.34
22 16 0.36
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (20 bp):
TGGTATCGATACCCCTACTA
Found at i:179174 original size:22 final size:22
Alignment explanation
Indices: 179146--179192 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
179136 TCTAATCTCT
179146 AATTTAACTCTATGACAAGTCA
1 AATTTAACTCTATGACAAGTCA
179168 AATTTAACTCTATGACAAGTCA
1 AATTTAACTCTATGACAAGTCA
179190 AAT
1 AAT
179193 GTCTAATCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.32
Consensus pattern (22 bp):
AATTTAACTCTATGACAAGTCA
Found at i:185270 original size:78 final size:79
Alignment explanation
Indices: 185072--185378 Score: 490
Period size: 79 Copynumber: 3.9 Consensus size: 79
185062 TTATGCTAAT
* * * **
185072 AATGCACCCATATGCATTTCAGCGATGGCATCCTTTCATGCCAATAATGCACCCATACACATTAT
1 AATGTACCCATATACATTTCAGCTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTAT
185137 TCTTTTATACTGAC
66 TCTTTTATACTGAC
* *
185151 TATGTACCCATATACATTTTAGCTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTAT
1 AATGTACCCATATACATTTCAGCTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTAT
*
185216 TCTTTTA-GCTGAC
66 TCTTTTATACTGAC
* *
185229 AATGTACCCATATACATTTTAGCTATGGCATCCTTTCATGCCAATAATGCACCAATATGCATTAT
1 AATGTACCCATATACATTTCAGCTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTAT
185294 TCTTTTATACTGAC
66 TCTTTTATACTGAC
* * *
185308 AATGTACCCATATACATTTCAGCTATGGCATCCTTCCATGCCACTAATTCACCCATATGCATTAT
1 AATGTACCCATATACATTTCAGCTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTAT
185373 TCTTTT
66 TCTTTT
185379 TCATTCGTTT
Statistics
Matches: 211, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
78 75 0.36
79 136 0.64
ACGTcount: A:0.28, C:0.26, G:0.10, T:0.36
Consensus pattern (79 bp):
AATGTACCCATATACATTTCAGCTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTAT
TCTTTTATACTGAC
Found at i:185363 original size:157 final size:157
Alignment explanation
Indices: 185072--185378 Score: 506
Period size: 157 Copynumber: 2.0 Consensus size: 157
185062 TTATGCTAAT
* *
185072 AATGCACCCATATGCATTTCAGCGATGGCATCCTTTCATGCCAATAATGCACCCATACACATTAT
1 AATGCACCCATATACATTTCAGCGATGGCATCCTTTCATGCCAATAATGCACCAATACACATTAT
* * *
185137 TCTTTTATACTGACTATGTACCCATATACATTTTAGCTATGGCATCCTTTCATGCCAATAATGCA
66 TCTTTTATACTGACAATGTACCCATATACATTTCAGCTATGGCATCCTTCCATGCCAATAATGCA
185202 CCCATATGCATTATTCTTTTAGCTGAC
131 CCCATATGCATTATTCTTTTAGCTGAC
* * * **
185229 AATGTACCCATATACATTTTAGCTATGGCATCCTTTCATGCCAATAATGCACCAATATGCATTAT
1 AATGCACCCATATACATTTCAGCGATGGCATCCTTTCATGCCAATAATGCACCAATACACATTAT
* *
185294 TCTTTTATACTGACAATGTACCCATATACATTTCAGCTATGGCATCCTTCCATGCCACTAATTCA
66 TCTTTTATACTGACAATGTACCCATATACATTTCAGCTATGGCATCCTTCCATGCCAATAATGCA
185359 CCCATATGCATTATTCTTTT
131 CCCATATGCATTATTCTTTT
185379 TCATTCGTTT
Statistics
Matches: 138, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
157 138 1.00
ACGTcount: A:0.28, C:0.26, G:0.10, T:0.36
Consensus pattern (157 bp):
AATGCACCCATATACATTTCAGCGATGGCATCCTTTCATGCCAATAATGCACCAATACACATTAT
TCTTTTATACTGACAATGTACCCATATACATTTCAGCTATGGCATCCTTCCATGCCAATAATGCA
CCCATATGCATTATTCTTTTAGCTGAC
Found at i:185934 original size:19 final size:20
Alignment explanation
Indices: 185864--185937 Score: 60
Period size: 20 Copynumber: 3.6 Consensus size: 20
185854 CGATTTTGCT
* * * *
185864 TGGTAACGATACTCTTACCA
1 TGGTATCGATACCCCTACTA
185884 TGGTATCGATACTACCCTACTA
1 TGGTATCGATAC--CCCTACTA
* * *
185906 TCGTACCGATACCCCT-TTA
1 TGGTATCGATACCCCTACTA
185925 TGGTATCGATACC
1 TGGTATCGATACC
185938 AAAATTAGAT
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
19 13 0.30
20 15 0.35
22 15 0.35
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (20 bp):
TGGTATCGATACCCCTACTA
Found at i:187992 original size:79 final size:79
Alignment explanation
Indices: 187861--188102 Score: 346
Period size: 79 Copynumber: 3.1 Consensus size: 79
187851 GAAGGAAGGG
* *
187861 AAAAGAATAATGCATATAGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGTATATGGG
1 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATTCCATAGCTGAAATGTATATGGG
*
187926 TACATTGTCAGTAT
66 TACATTGTCAGCAT
*
187940 AAAAGAATGATGCATATGGGTGCATTATTGGCATGAAAGGATTCCATAGCTGAAATGTATATGGG
1 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATTCCATAGCTGAAATGTATATGGG
188005 TACATTGTCAGCAT
66 TACATTGTCAGCAT
* * * *
188019 AAAAGAATAATGCATATGGGTGCATCATTAAG-AT-AGAAGGATGT-CATCGCTGAAATGCATAT
1 AAAAGAATAATGCATATGGGTGCATTATT-GGCATGA-AAGGAT-TCCATAGCTGAAATGTATAT
* *
188081 GGGTACATTATTAGCAT
63 GGGTACATTGTCAGCAT
188098 AAAAG
1 AAAAG
188103 TATATTTTAT
Statistics
Matches: 149, Mismatches: 11, Indels: 6
0.90 0.07 0.04
Matches are distributed among these distances:
78 1 0.01
79 146 0.98
80 2 0.01
ACGTcount: A:0.37, C:0.11, G:0.24, T:0.28
Consensus pattern (79 bp):
AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATTCCATAGCTGAAATGTATATGGG
TACATTGTCAGCAT
Found at i:188383 original size:55 final size:55
Alignment explanation
Indices: 188322--188440 Score: 204
Period size: 55 Copynumber: 2.2 Consensus size: 55
188312 TATGACTCAT
* *
188322 TAAGTAATGACTTATCGTGTGTGTTTCCATGTGTAGGTAACAACAGAGAATAAAC
1 TAAGTAAGGACTTATCGTGTGTGTTTCCATGCGTAGGTAACAACAGAGAATAAAC
*
188377 TAAGTAAGGACTTATCGTGTGTGTTTCCATGCGTAGGTAACAACAGAGAATAATC
1 TAAGTAAGGACTTATCGTGTGTGTTTCCATGCGTAGGTAACAACAGAGAATAAAC
188432 -AAGTAAGGA
1 TAAGTAAGGA
188441 GTGCAGCTGT
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
54 9 0.15
55 52 0.85
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.29
Consensus pattern (55 bp):
TAAGTAAGGACTTATCGTGTGTGTTTCCATGCGTAGGTAACAACAGAGAATAAAC
Found at i:190565 original size:22 final size:23
Alignment explanation
Indices: 190518--190567 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 23
190508 AAAAATATAT
190518 TAAAATATTTTTTATAAATTATAAA
1 TAAAATATTTTTTAT--ATTATAAA
190543 TAAAATATTTATTTAT-TTA-AAA
1 TAAAATATTT-TTTATATTATAAA
190565 TAA
1 TAA
190568 CAGAAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
22 6 0.25
23 3 0.12
25 10 0.42
26 5 0.21
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
TAAAATATTTTTTATATTATAAA
Found at i:190567 original size:26 final size:23
Alignment explanation
Indices: 190509--190576 Score: 55
Period size: 25 Copynumber: 2.7 Consensus size: 23
190499 CTAAGGAAGA
*
190509 AAAATATATTAAAATATTTTTTAT
1 AAAATA-AATAAAATATTTTTTAT
190533 AAATTATAAATAAAATATTTATTTATTT
1 AAA--ATAAATAAAATATTT-TTTA--T
*
190561 AAAATAACAGAAAATA
1 AAAATAA-ATAAAATA
190577 ACATCTAGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
24 3 0.08
25 11 0.31
26 11 0.31
27 7 0.19
28 4 0.11
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (23 bp):
AAAATAAATAAAATATTTTTTAT
Found at i:192502 original size:116 final size:116
Alignment explanation
Indices: 192298--192653 Score: 595
Period size: 116 Copynumber: 3.1 Consensus size: 116
192288 TTCTGCCCAG
* * * *
192298 AGGTCTTATGAATGTCCCTGAGGTCTTATCATCTTGCACTGTATGTCTTATAGATGACCCGGAGG
1 AGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGGAGG
* * * *
192363 TTTTAAATATCAAAAAGCTCCCGATGTCATTTTGAAAACATTCTACACTGT
66 TTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCCTACACTGT
* * *
192414 AGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGAATTGTAGGTCTTACAGATGACCCGAAGG
1 AGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGGAGG
192479 TTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCCTACACTGT
66 TTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCCTACACTGT
*
192530 AGGTCTTATAGATGGCCCTGAGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGGAGG
1 AGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGGAGG
*
192595 TTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCCTGCACTGT
66 TTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCCTACACTGT
192646 AGGTCTTA
1 AGGTCTTA
192654 CAGATGACCT
Statistics
Matches: 224, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
116 224 1.00
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (116 bp):
AGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGGAGG
TTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCCTACACTGT
Found at i:192578 original size:22 final size:21
Alignment explanation
Indices: 192524--192585 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
192514 AAACATCCTA
192524 CACTGTAGGTCTTATAGATGG
1 CACTGTAGGTCTTATAGATGG
* ** *
192545 CCCTG-AGGTCTTATCATCTTG
1 CACTGTAGGTCTTAT-AGATGG
*
192566 CACTGTAGGTCTTACAGATG
1 CACTGTAGGTCTTATAGATG
192586 ACCCGGAGGT
Statistics
Matches: 30, Mismatches: 9, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
20 9 0.30
21 13 0.43
22 8 0.27
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.34
Consensus pattern (21 bp):
CACTGTAGGTCTTATAGATGG
Found at i:192684 original size:190 final size:190
Alignment explanation
Indices: 192453--192843 Score: 649
Period size: 190 Copynumber: 2.1 Consensus size: 190
192443 CATCTTGAAT
*
192453 TGTAGGTCTTACAGATGACCCGAAGGTTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTGAAAAC
1 TGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTGAAAAC
* *
192518 ATCCTACACTGTAGGTCTTATAGATGGCCCTGAGGTCTTATCATCTTGCA-CTGTAGGTCTTACA
66 ATCCTACACTGTAGGTCTTATAGATGGCCCTAACGTCTTATCATCTTGCATC-GTAGGTCTTACA
* * *
192582 GATGACCCGGAGGTTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCCTGCAC
130 GATGACCCGGAGGCTTTAAATATAAAAAAGCTCCCAAAGGCTTTTTGAAAACATCCTGCAC
* *
192643 TGTAGGTCTTACAGATGACCTGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTGAAAAC
1 TGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTGAAAAC
* * *
192708 ATCCTACACTGTAGGTCTTATGGATTGCCCTAACGTCTTATTATCTTGCATCGTAGGTCTTACAG
66 ATCCTACACTGTAGGTCTTATAGATGGCCCTAACGTCTTATCATCTTGCATCGTAGGTCTTACAG
* *
192773 ATGACCCGGAGGCTTTAAATATAAAAAAGCTCCCAAAGGCTTTTTGAAAACATCTTGCAT
131 ATGACCCGGAGGCTTTAAATATAAAAAAGCTCCCAAAGGCTTTTTGAAAACATCCTGCAC
192833 TGTAGGTCTTA
1 TGTAGGTCTTA
192844 TGGACGGCCC
Statistics
Matches: 187, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
190 186 0.99
191 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (190 bp):
TGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTGAAAAC
ATCCTACACTGTAGGTCTTATAGATGGCCCTAACGTCTTATCATCTTGCATCGTAGGTCTTACAG
ATGACCCGGAGGCTTTAAATATAAAAAAGCTCCCAAAGGCTTTTTGAAAACATCCTGCAC
Found at i:192685 original size:74 final size:74
Alignment explanation
Indices: 192559--192727 Score: 302
Period size: 74 Copynumber: 2.3 Consensus size: 74
192549 GAGGTCTTAT
* *
192559 CATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGTTTTAAATATCAAAAAGCTCCCGAAGGCT
1 CATCCTGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCT
192624 TTTTGAAAA
66 TTTTGAAAA
*
192633 CATCCTGCACTGTAGGTCTTACAGATGACCTGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCT
1 CATCCTGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCT
192698 TTTTGAAAA
66 TTTTGAAAA
*
192707 CATCCTACACTGTAGGTCTTA
1 CATCCTGCACTGTAGGTCTTA
192728 TGGATTGCCC
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 91 1.00
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (74 bp):
CATCCTGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCT
TTTTGAAAA
Found at i:192854 original size:116 final size:116
Alignment explanation
Indices: 192633--193197 Score: 864
Period size: 116 Copynumber: 4.9 Consensus size: 116
192623 TTTTTGAAAA
* * *
192633 CATCCTGCACTGTAGGTCTTACAGATGACCTGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCT
1 CATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATAAAAAAGCTCCCGAAGGCT
* * * * *
192698 TTTTGAAAACATCCTACACTGTAGGTCTTATGGATTGCCCTAACGTCTTAT
66 TTTTGAAAACATCATGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTAT
* *
192749 TATCTTGCA-TCGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATAAAAAAGCTCCCAAAGGC
1 CATCTTGCACT-GTAGGTCTTACAGATGACCCGGAGGCTTTAAATATAAAAAAGCTCCCGAAGGC
* * * *
192813 TTTTTGAAAACATCTTGCATTGTAGGTCTTATGGACGGCCCTGTGGTCTTAT
65 TTTTTGAAAACATCATGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTAT
* * *
192865 CATCTTGCACTATAGGTCTTACAGATGACCCGGAGGCTTTAAATATAAAAAAACTCCCAAAGGCT
1 CATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATAAAAAAGCTCCCGAAGGCT
* *
192930 TTTTGAAAACATCATGCACTGTAGGTCCTATGGATGGCTCTGAGGTCTTAT
66 TTTTGAAAACATCATGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTAT
* * * *
192981 CATCTTGCACTGTAGGTCTTACAGATGACCCGGATGCCTTAAATATCAAAAAGCTCCCGATGGCT
1 CATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATAAAAAAGCTCCCGAAGGCT
*
193046 TTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTAT
66 TTTTGAAAACATCATGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTAT
* *
193097 CATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGTTTTAAATATCAAAAAA-CTGCCGAAGGC
1 CATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATAT-AAAAAAGCTCCCGAAGGC
193161 TTTTTGAAAACATCATGCACTGTAGGTCTTATGGATG
65 TTTTTGAAAACATCATGCACTGTAGGTCTTATGGATG
193198 TGGGAAATAG
Statistics
Matches: 407, Mismatches: 39, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
115 1 0.00
116 400 0.98
117 6 0.01
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (116 bp):
CATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATAAAAAAGCTCCCGAAGGCT
TTTTGAAAACATCATGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTAT
Found at i:192885 original size:306 final size:306
Alignment explanation
Indices: 192327--192956 Score: 981
Period size: 306 Copynumber: 2.1 Consensus size: 306
192317 GAGGTCTTAT
* * * * * *
192327 CATCTTGCACTGTATGTCTTATAGATGACCCGGAGGTTTTAAATATCAAAAAGCTCCCGATGTCA
1 CATCATGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCA
* * * *
192392 TTTTGAAAACATTCTACACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGAATTGTA
66 TTTTGAAAACATCCTACACTGTAGGTCTTATGGATGGCCCTAACGTCTTATCATCTTGAATCGTA
* * *
192457 GGTCTTACAGATGACCCGAAGGTTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCC
131 GGTCTTACAGATGACCCGAAGGCTTTAAATATAAAAAAGCTCCCAAAGGCTTTTTGAAAACATCC
* *
192522 TACACTGTAGGTCTTATAGATGGCCCTGAGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGA
196 TACACTGTAGGTCTTATAGACGGCCCTGAGGTCTTATCATCTTGCACTATAGGTCTTACAGATGA
* * * *
192587 CCCGGAGGTTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTGAAAA
261 CCCGGAGGCTTTAAATATAAAAAAACTCCCAAAGGCTTTTTGAAAA
* * *
192633 CATCCTGCACTGTAGGTCTTACAGATGACCTGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCT
1 CATCATGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCA
* * *
192698 TTTTGAAAACATCCTACACTGTAGGTCTTATGGATTGCCCTAACGTCTTATTATCTTGCATCGTA
66 TTTTGAAAACATCCTACACTGTAGGTCTTATGGATGGCCCTAACGTCTTATCATCTTGAATCGTA
* *
192763 GGTCTTACAGATGACCCGGAGGCTTTAAATATAAAAAAGCTCCCAAAGGCTTTTTGAAAACATCT
131 GGTCTTACAGATGACCCGAAGGCTTTAAATATAAAAAAGCTCCCAAAGGCTTTTTGAAAACATCC
* * * *
192828 TGCATTGTAGGTCTTATGGACGGCCCTGTGGTCTTATCATCTTGCACTATAGGTCTTACAGATGA
196 TACACTGTAGGTCTTATAGACGGCCCTGAGGTCTTATCATCTTGCACTATAGGTCTTACAGATGA
192893 CCCGGAGGCTTTAAATATAAAAAAACTCCCAAAGGCTTTTTGAAAA
261 CCCGGAGGCTTTAAATATAAAAAAACTCCCAAAGGCTTTTTGAAAA
192939 CATCATGCACTGTAGGTC
1 CATCATGCACTGTAGGTC
192957 CTATGGATGG
Statistics
Matches: 293, Mismatches: 31, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
306 293 1.00
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.31
Consensus pattern (306 bp):
CATCATGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCA
TTTTGAAAACATCCTACACTGTAGGTCTTATGGATGGCCCTAACGTCTTATCATCTTGAATCGTA
GGTCTTACAGATGACCCGAAGGCTTTAAATATAAAAAAGCTCCCAAAGGCTTTTTGAAAACATCC
TACACTGTAGGTCTTATAGACGGCCCTGAGGTCTTATCATCTTGCACTATAGGTCTTACAGATGA
CCCGGAGGCTTTAAATATAAAAAAACTCCCAAAGGCTTTTTGAAAA
Found at i:193116 original size:22 final size:23
Alignment explanation
Indices: 193055--193117 Score: 62
Period size: 21 Copynumber: 2.9 Consensus size: 23
193045 TTTTTGAAAA
*
193055 CATCCTGCACTGTAGGTCTTATG
1 CATCTTGCACTGTAGGTCTTATG
* * *
193078 GA--TGGCCCTG-AGGTCTTAT-
1 CATCTTGCACTGTAGGTCTTATG
193097 CATCTTGCACTGTAGGTCTTA
1 CATCTTGCACTGTAGGTCTTA
193118 CAGATGACCC
Statistics
Matches: 30, Mismatches: 7, Indels: 7
0.68 0.16 0.16
Matches are distributed among these distances:
19 1 0.03
20 9 0.30
21 11 0.37
22 8 0.27
23 1 0.03
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (23 bp):
CATCTTGCACTGTAGGTCTTATG
Found at i:193881 original size:22 final size:22
Alignment explanation
Indices: 193856--193910 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
193846 AATAAAGCTC
* *
193856 TCATGTTTGAAAAGAGAATCTA
1 TCATATTTGAAAACAGAATCTA
*
193878 TCATATTTGAAAACAGAATTTA
1 TCATATTTGAAAACAGAATCTA
*
193900 TCATCTTTGAA
1 TCATATTTGAA
193911 TAATGTAGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (22 bp):
TCATATTTGAAAACAGAATCTA
Found at i:194380 original size:54 final size:53
Alignment explanation
Indices: 194237--194390 Score: 184
Period size: 54 Copynumber: 2.8 Consensus size: 53
194227 AGAATAACTG
* * *
194237 GTTCGTAAAACATTTGACAACACATTCATCCTTT-CTTGTGGCTCCTGCACAGAT
1 GTTCGT-AAACATTTGACAACACATTCATCCTTTCCTAG-GGCTTCTGCACAAAT
* * *
194291 GTTCGTAATACATTTGACAACACATTCATCCTTTCCTCGGGCTTCTTCCCAAAT
1 GTTCGTAA-ACATTTGACAACACATTCATCCTTTCCTAGGGCTTCTGCACAAAT
* * *
194345 GTTCGCAAAGCATTTGACAACACATTCATACTTTCCTATGGCTTCT
1 GTTCGTAAA-CATTTGACAACACATTCATCCTTTCCTAGGGCTTCT
194391 ACTCAGATTT
Statistics
Matches: 88, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
53 3 0.03
54 82 0.93
55 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.13, T:0.34
Consensus pattern (53 bp):
GTTCGTAAACATTTGACAACACATTCATCCTTTCCTAGGGCTTCTGCACAAAT
Found at i:197285 original size:5 final size:5
Alignment explanation
Indices: 197269--197341 Score: 62
Period size: 5 Copynumber: 14.4 Consensus size: 5
197259 GATTCAATAT
*
197269 TTTTC -TTT- TTTTC TTTTC TTTTC ATTTT- TTTTC TTTTTC TTTTC TCTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC -TTTTC TTTTC -TTTTC TTTTC TTTTC
* *
197318 TTTTA TTTTCC TCTTTT TTTTC TT
1 TTTTC TTTT-C T-TTTC TTTTC TT
197342 ATGATGAATG
Statistics
Matches: 55, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
4 10 0.18
5 31 0.56
6 11 0.20
7 3 0.05
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTC
Found at i:197299 original size:20 final size:21
Alignment explanation
Indices: 197274--197312 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
197264 AATATTTTTC
197274 TTTTTTTC-TTTTCTTTTCAT
1 TTTTTTTCTTTTTCTTTTCAT
197294 TTTTTTTCTTTTTCTTTTC
1 TTTTTTTCTTTTTCTTTTC
197313 TCTTCTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (21 bp):
TTTTTTTCTTTTTCTTTTCAT
Found at i:197305 original size:26 final size:26
Alignment explanation
Indices: 197267--197341 Score: 84
Period size: 26 Copynumber: 2.9 Consensus size: 26
197257 TCGATTCAAT
*
197267 ATTTTTCTT-TTTTTCTTTTCTTTTC
1 ATTTTTTTTCTTTTTCTTTTCTTTTC
*
197292 ATTTTTTTTCTTTTTCTTTTCTCTTC
1 ATTTTTTTTCTTTTTCTTTTCTTTTC
197318 -TTTTATTTTCCTCTTTT-TTTTCTT
1 ATTTT-TTTT-CT-TTTTCTTTTCTT
197342 ATGATGAATG
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
25 12 0.28
26 19 0.44
27 8 0.19
28 4 0.09
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.79
Consensus pattern (26 bp):
ATTTTTTTTCTTTTTCTTTTCTTTTC
Found at i:197321 original size:21 final size:21
Alignment explanation
Indices: 197268--197326 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
197258 CGATTCAATA
197268 TTTT-TCTTTTTTTCT-TTTC
1 TTTTCTCTTTTTTTCTTTTTC
197287 TTTTCAT-TTTTTTTCTTTTTC
1 TTTTC-TCTTTTTTTCTTTTTC
* *
197308 TTTTCTCTTCTTTTATTTT
1 TTTTCTCTTTTTTTCTTTT
197327 CCTCTTTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 4 0.12
20 10 0.29
21 20 0.59
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.81
Consensus pattern (21 bp):
TTTTCTCTTTTTTTCTTTTTC
Found at i:197640 original size:2 final size:2
Alignment explanation
Indices: 197633--197662 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
197623 ACAATAAAGG
*
197633 AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
197663 TTGAAAGGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:197836 original size:15 final size:17
Alignment explanation
Indices: 197816--197850 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
197806 AAATCAATCT
197816 TTTTTTTCTT-TT-TTC
1 TTTTTTTCTTCTTCTTC
197831 TTTTTTTCTTCTTCTTC
1 TTTTTTTCTTCTTCTTC
197848 TTT
1 TTT
197851 GAGTATGCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 10 0.56
16 2 0.11
17 6 0.33
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTTTTCTTCTTCTTC
Found at i:202757 original size:22 final size:23
Alignment explanation
Indices: 202710--202758 Score: 57
Period size: 25 Copynumber: 2.1 Consensus size: 23
202700 AAAAAGATAT
202710 TAAAATATTTTTTATAAATTAGAAA
1 TAAAATATTTTTTAT--ATTAGAAA
202735 TAAAATATTTATTTAT-TTA-AAA
1 TAAAATATTT-TTTATATTAGAAA
202757 TA
1 TA
202759 TCAGAAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
22 5 0.22
23 3 0.13
25 10 0.43
26 5 0.22
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (23 bp):
TAAAATATTTTTTATATTAGAAA
Found at i:205822 original size:2 final size:2
Alignment explanation
Indices: 205815--205852 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
205805 TTTGTGAACA
205815 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
205853 GCTATGGGGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:209626 original size:13 final size:13
Alignment explanation
Indices: 209607--209683 Score: 64
Period size: 13 Copynumber: 5.4 Consensus size: 13
209597 AACCCGACCC
209607 GACCCGACCCGTT
1 GACCCGACCCGTT
* *
209620 TACCCGACCAGTT
1 GACCCGACCCGTT
209633 GACCCGACCCGACCCGTT
1 G-----ACCCGACCCGTT
209651 GACCCGACCCGTT
1 GACCCGACCCGTT
*
209664 GACCGTTGACCCGTT
1 GACC--CGACCCGTT
209679 GACCC
1 GACCC
209684 ACGTTGACCA
Statistics
Matches: 51, Mismatches: 6, Indels: 14
0.72 0.08 0.20
Matches are distributed among these distances:
13 27 0.53
15 12 0.24
18 12 0.24
ACGTcount: A:0.17, C:0.44, G:0.22, T:0.17
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:209626 original size:18 final size:18
Alignment explanation
Indices: 209602--209661 Score: 76
Period size: 18 Copynumber: 3.6 Consensus size: 18
209592 GTCATAACCC
209602 GACCCGACCCGACCCGTT
1 GACCCGACCCGACCCGTT
*
209620 TACCCGA-CC-A---GTT
1 GACCCGACCCGACCCGTT
209633 GACCCGACCCGACCCGTT
1 GACCCGACCCGACCCGTT
209651 GACCCGACCCG
1 GACCCGACCCG
209662 TTGACCGTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
13 9 0.26
14 2 0.06
15 1 0.03
16 1 0.03
17 2 0.06
18 20 0.57
ACGTcount: A:0.18, C:0.48, G:0.22, T:0.12
Consensus pattern (18 bp):
GACCCGACCCGACCCGTT
Found at i:209637 original size:31 final size:31
Alignment explanation
Indices: 209602--209667 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
209592 GTCATAACCC
*
209602 GACCCGACCCGACCCGTTTACCCGACCAGTT
1 GACCCGACCCGACCCGTTGACCCGACCAGTT
*
209633 GACCCGACCCGACCCGTTGACCCGACCCGTT
1 GACCCGACCCGACCCGTTGACCCGACCAGTT
209664 GACC
1 GACC
209668 GTTGACCCGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.18, C:0.47, G:0.21, T:0.14
Consensus pattern (31 bp):
GACCCGACCCGACCCGTTGACCCGACCAGTT
Found at i:209654 original size:8 final size:8
Alignment explanation
Indices: 209643--209702 Score: 56
Period size: 8 Copynumber: 7.5 Consensus size: 8
209633 GACCCGACCC
209643 GACCCGTT
1 GACCCGTT
209651 GACCC---
1 GACCCGTT
209656 GACCCGTT
1 GACCCGTT
209664 GA-CCGTT
1 GACCCGTT
209671 GACCCGTT
1 GACCCGTT
209679 GACCCACGTT
1 GA-CC-CGTT
209689 GACCACTGTT
1 GACC-C-GTT
209699 GACC
1 GACC
209703 AAAACTTTGA
Statistics
Matches: 45, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
5 5 0.11
7 7 0.16
8 14 0.31
9 6 0.13
10 13 0.29
ACGTcount: A:0.17, C:0.38, G:0.23, T:0.22
Consensus pattern (8 bp):
GACCCGTT
Found at i:209676 original size:15 final size:13
Alignment explanation
Indices: 209638--209683 Score: 65
Period size: 13 Copynumber: 3.4 Consensus size: 13
209628 CAGTTGACCC
209638 GACCCGACCCGTT
1 GACCCGACCCGTT
209651 GACCCGACCCGTT
1 GACCCGACCCGTT
*
209664 GACCGTTGACCCGTT
1 GACC--CGACCCGTT
209679 GACCC
1 GACCC
209684 ACGTTGACCA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 17 0.59
15 12 0.41
ACGTcount: A:0.15, C:0.43, G:0.24, T:0.17
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:209690 original size:10 final size:9
Alignment explanation
Indices: 209656--209703 Score: 50
Period size: 10 Copynumber: 5.6 Consensus size: 9
209646 CCGTTGACCC
209656 GACC-CGTT
1 GACCACGTT
209664 GA-C-CGTT
1 GACCACGTT
209671 GACC-CGTT
1 GACCACGTT
209679 GACCCACGTT
1 GA-CCACGTT
209689 GACCACTGTT
1 GACCAC-GTT
209699 GACCA
1 GACCA
209704 AAACTTTGAC
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
7 7 0.19
8 9 0.25
9 6 0.17
10 14 0.39
ACGTcount: A:0.19, C:0.35, G:0.23, T:0.23
Consensus pattern (9 bp):
GACCACGTT
Found at i:210997 original size:18 final size:18
Alignment explanation
Indices: 210971--211011 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
210961 ATTGTTCGAA
* *
210971 AAGACTGAAGTAAATGAT
1 AAGATTGAAGTAAATAAT
*
210989 AAGATTGAATTAAATAAT
1 AAGATTGAAGTAAATAAT
211007 AAGAT
1 AAGAT
211012 CGGATGGAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.54, C:0.02, G:0.17, T:0.27
Consensus pattern (18 bp):
AAGATTGAAGTAAATAAT
Found at i:211989 original size:47 final size:47
Alignment explanation
Indices: 211934--212032 Score: 198
Period size: 47 Copynumber: 2.1 Consensus size: 47
211924 ATAACTGATG
211934 ATTCTGTCAGTTATTGAACTCTTTCAATAGTGATTCTGAATTCCGAT
1 ATTCTGTCAGTTATTGAACTCTTTCAATAGTGATTCTGAATTCCGAT
211981 ATTCTGTCAGTTATTGAACTCTTTCAATAGTGATTCTGAATTCCGAT
1 ATTCTGTCAGTTATTGAACTCTTTCAATAGTGATTCTGAATTCCGAT
212028 ATTCT
1 ATTCT
212033 ATCGGTATAC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 52 1.00
ACGTcount: A:0.25, C:0.17, G:0.14, T:0.43
Consensus pattern (47 bp):
ATTCTGTCAGTTATTGAACTCTTTCAATAGTGATTCTGAATTCCGAT
Found at i:212276 original size:24 final size:24
Alignment explanation
Indices: 212155--212269 Score: 162
Period size: 24 Copynumber: 4.8 Consensus size: 24
212145 TCGATTTGAT
212155 TTCTGATCTGATACTTGACATGGA
1 TTCTGATCTGATACTTGACATGGA
212179 TTCTGATCTGATA-TCTGACATGGA
1 TTCTGATCTGATACT-TGACATGGA
*
212203 TTCTGATCTGATACTTGACTTGGA
1 TTCTGATCTGATACTTGACATGGA
* *
212227 TTCTGATCTGTTACTTGACCT-GA
1 TTCTGATCTGATACTTGACATGGA
*
212250 TTTCTGATATGATACTTGAC
1 -TTCTGATCTGATACTTGAC
212270 CTGATTTATG
Statistics
Matches: 83, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
23 3 0.04
24 79 0.95
25 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.41
Consensus pattern (24 bp):
TTCTGATCTGATACTTGACATGGA
Found at i:212292 original size:24 final size:24
Alignment explanation
Indices: 212206--212279 Score: 78
Period size: 24 Copynumber: 3.1 Consensus size: 24
212196 ACATGGATTC
* * *
212206 TGATCTGATACTTGACTTGGA-TTC
1 TGATATGATACTTGACCT-GATTTA
* * *
212230 TGATCTGTTACTTGACCTGATTTC
1 TGATATGATACTTGACCTGATTTA
212254 TGATATGATACTTGACCTGATTTA
1 TGATATGATACTTGACCTGATTTA
212278 TG
1 TG
212280 TTTTGATTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 2 0.05
24 42 0.95
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.43
Consensus pattern (24 bp):
TGATATGATACTTGACCTGATTTA
Found at i:214412 original size:13 final size:13
Alignment explanation
Indices: 214393--214469 Score: 64
Period size: 13 Copynumber: 5.4 Consensus size: 13
214383 AACCCGACCC
214393 GACCCGACCCGTT
1 GACCCGACCCGTT
* *
214406 TACCCGACCAGTT
1 GACCCGACCCGTT
214419 GACCCGACCCGACCCGTT
1 G-----ACCCGACCCGTT
214437 GACCCGACCCGTT
1 GACCCGACCCGTT
*
214450 GACCGTTGACCCGTT
1 GACC--CGACCCGTT
214465 GACCC
1 GACCC
214470 ACGTTGACCA
Statistics
Matches: 51, Mismatches: 6, Indels: 14
0.72 0.08 0.20
Matches are distributed among these distances:
13 27 0.53
15 12 0.24
18 12 0.24
ACGTcount: A:0.17, C:0.44, G:0.22, T:0.17
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:214412 original size:18 final size:18
Alignment explanation
Indices: 214388--214447 Score: 76
Period size: 18 Copynumber: 3.6 Consensus size: 18
214378 GTCATAACCC
214388 GACCCGACCCGACCCGTT
1 GACCCGACCCGACCCGTT
*
214406 TACCCGA-CC-A---GTT
1 GACCCGACCCGACCCGTT
214419 GACCCGACCCGACCCGTT
1 GACCCGACCCGACCCGTT
214437 GACCCGACCCG
1 GACCCGACCCG
214448 TTGACCGTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
13 9 0.26
14 2 0.06
15 1 0.03
16 1 0.03
17 2 0.06
18 20 0.57
ACGTcount: A:0.18, C:0.48, G:0.22, T:0.12
Consensus pattern (18 bp):
GACCCGACCCGACCCGTT
Found at i:214423 original size:31 final size:31
Alignment explanation
Indices: 214388--214453 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
214378 GTCATAACCC
*
214388 GACCCGACCCGACCCGTTTACCCGACCAGTT
1 GACCCGACCCGACCCGTTGACCCGACCAGTT
*
214419 GACCCGACCCGACCCGTTGACCCGACCCGTT
1 GACCCGACCCGACCCGTTGACCCGACCAGTT
214450 GACC
1 GACC
214454 GTTGACCCGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.18, C:0.47, G:0.21, T:0.14
Consensus pattern (31 bp):
GACCCGACCCGACCCGTTGACCCGACCAGTT
Found at i:214440 original size:8 final size:8
Alignment explanation
Indices: 214429--214488 Score: 56
Period size: 8 Copynumber: 7.5 Consensus size: 8
214419 GACCCGACCC
214429 GACCCGTT
1 GACCCGTT
214437 GACCC---
1 GACCCGTT
214442 GACCCGTT
1 GACCCGTT
214450 GA-CCGTT
1 GACCCGTT
214457 GACCCGTT
1 GACCCGTT
214465 GACCCACGTT
1 GA-CC-CGTT
214475 GACCACTGTT
1 GACC-C-GTT
214485 GACC
1 GACC
214489 AAAACTTTGA
Statistics
Matches: 45, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
5 5 0.11
7 7 0.16
8 14 0.31
9 6 0.13
10 13 0.29
ACGTcount: A:0.17, C:0.38, G:0.23, T:0.22
Consensus pattern (8 bp):
GACCCGTT
Found at i:214462 original size:15 final size:13
Alignment explanation
Indices: 214424--214469 Score: 65
Period size: 13 Copynumber: 3.4 Consensus size: 13
214414 CAGTTGACCC
214424 GACCCGACCCGTT
1 GACCCGACCCGTT
214437 GACCCGACCCGTT
1 GACCCGACCCGTT
*
214450 GACCGTTGACCCGTT
1 GACC--CGACCCGTT
214465 GACCC
1 GACCC
214470 ACGTTGACCA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 17 0.59
15 12 0.41
ACGTcount: A:0.15, C:0.43, G:0.24, T:0.17
Consensus pattern (13 bp):
GACCCGACCCGTT
Done.