Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006265.1 Hibiscus syriacus cultivar Beakdansim tig00014941_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: 110273
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Found at i:7360 original size:2 final size:2
Alignment explanation
Indices: 7353--7378 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7343 CCCTCAATTG
7353 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
7379 TATATATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:12006 original size:19 final size:20
Alignment explanation
Indices: 11968--12005 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11958 TCACCTAATT
11968 ATCACTATAATTTTATTTTA
1 ATCACTATAATTTTATTTTA
11988 ATCACT-TAATTATTATTT
1 ATCACTATAATT-TTATTT
12006 ACTTTATGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.55
Consensus pattern (20 bp):
ATCACTATAATTTTATTTTA
Found at i:13094 original size:87 final size:87
Alignment explanation
Indices: 12948--13174 Score: 373
Period size: 87 Copynumber: 2.6 Consensus size: 87
12938 TATGTTATAT
* * * *
12948 CATTTAACCGAAAATATTATCAAGTACAATAACACATTAGGTAGCACTTATATATTGTAATAGAT
1 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGAT
*
13013 AGCGCTTTTATAATAAAATAGG
66 AGCGCTTATATAATAAAATAGG
* *
13035 CATTTAACCGGAAATATTATCAAATACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
1 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGAT
* *
13100 AGCGCTTATATAATAAAGTAGT
66 AGCGCTTATATAATAAAATAGG
13122 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATAT
1 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATAT
13175 TGACATATTT
Statistics
Matches: 130, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 130 1.00
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.32
Consensus pattern (87 bp):
CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGAT
AGCGCTTATATAATAAAATAGG
Found at i:13618 original size:200 final size:197
Alignment explanation
Indices: 13192--13692 Score: 584
Period size: 200 Copynumber: 2.5 Consensus size: 197
13182 TTTTCTAACT
* * *
13192 AAACCGGTATATTTATACCGGTAACATTGTAAATTTACCTATTACATTCTAATTATCGGTTTCGA
1 AAACCGGTATATTTATAACGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
* *
13257 TGTTTTTGGGATCGATACAATTT--TAAATGTATCGACACTTTATGCATGCATCTCGTTGGCATT
66 TGTTTTT-GGATCGATAC-TTTTAATAAATGTATCGACACTTTATGCATGCATCTCGTTGACATT
* * * *
13320 CATTCTAGACAAAATGTATCGACACAAACTTAAAACGTGTCTATACATTATGTATACCTATTTTC
129 CATTCTAGACAAAATATATCGACACAAACTTAAAACGTGTCGATACATTATGTATA-CTATTCTA
13385 TCATA
193 TCATA
* * * * * **
13390 AAATCGGTATATTT-TTACTGGGTACATTGTAAATTTACTTATTACATTGTAATTATTAGTTTCG
1 AAACCGGTATATTTATAAC-GGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCG
* * **
13454 ATGCTTTTGAGATCGATACTTTTAATAAATGTATAGACACTTTATGTGTGCA-CATCGTTTGACA
65 ATGTTTTTG-GATCGATACTTTTAATAAATGTATCGACACTTTATGCATGCATC-TCG-TTGACA
* *** **
13518 TTCATTCTAGACAAAATATATTGACAC-TTTTTAAATTTGTGTCGATACATTATGTTGATA-TAT
127 TTCATTCTAGACAAAATATATCGACACAAACTTAAA-ACGTGTCGATACATTATG-T-ATACTAT
13581 TCTATCATA
189 TCTATCATA
* *
13590 AAACCGATATATTTATAACGGTTACATTGTAAATTTACCTATTACATTATGATTATCGGTTTCGA
1 AAACCGGTATATTTATAACGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
* *
13655 TGTTTTTGGGTTGATACTTTTAGA-AAATGTATCGACAC
66 TGTTTTTGGATCGATACTTTTA-ATAAATGTATCGACAC
13693 ATATGTTTAC
Statistics
Matches: 254, Mismatches: 38, Indels: 21
0.81 0.12 0.07
Matches are distributed among these distances:
197 6 0.02
198 69 0.27
199 57 0.22
200 115 0.45
201 4 0.02
202 3 0.01
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (197 bp):
AAACCGGTATATTTATAACGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
TGTTTTTGGATCGATACTTTTAATAAATGTATCGACACTTTATGCATGCATCTCGTTGACATTCA
TTCTAGACAAAATATATCGACACAAACTTAAAACGTGTCGATACATTATGTATACTATTCTATCA
TA
Found at i:14590 original size:2 final size:2
Alignment explanation
Indices: 14567--14608 Score: 57
Period size: 2 Copynumber: 20.0 Consensus size: 2
14557 TAATTATAAA
*
14567 AT AT GAT AT TT AT AT CAT 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 AT
14609 TCAAATTAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
2 32 0.89
3 4 0.11
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15004 original size:29 final size:29
Alignment explanation
Indices: 14956--15013 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
14946 ATATTATTAC
* *
14956 TTTCAAACACTAACTTGACGACATAATGT
1 TTTCAAACACCAACTAGACGACATAATGT
*
14985 TTTCAAACACCGACTAGACGACATAATGT
1 TTTCAAACACCAACTAGACGACATAATGT
15014 AAATAGAGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.38, C:0.22, G:0.12, T:0.28
Consensus pattern (29 bp):
TTTCAAACACCAACTAGACGACATAATGT
Found at i:16010 original size:3 final size:3
Alignment explanation
Indices: 15965--15994 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
15955 ACATCATCCA
15965 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
15995 AACTTGTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:26250 original size:21 final size:20
Alignment explanation
Indices: 26224--26282 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 20
26214 CGCAAATCAG
26224 TTTCCAGATTCGCAATGCGAT
1 TTTCCA-ATTCGCAATGCGAT
**
26245 TTTCCAATTTCGCGTTGCGAT
1 TTTCCAA-TTCGCAATGCGAT
26266 TTTCCCAATTCGCAATG
1 TTT-CCAATTCGCAATG
26283 TGAATAAGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.03
21 27 0.84
22 4 0.12
ACGTcount: A:0.20, C:0.25, G:0.17, T:0.37
Consensus pattern (20 bp):
TTTCCAATTCGCAATGCGAT
Found at i:26340 original size:20 final size:20
Alignment explanation
Indices: 26315--26444 Score: 100
Period size: 20 Copynumber: 6.5 Consensus size: 20
26305 AATTTGGAAA
*
26315 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
26335 ATCGCAACGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
26356 ATCGCAACGTGATACTGACT
1 ATCGCAACGCGATACTGACT
* * *
26376 TTCGCAACGCGATTCAGACT
1 ATCGCAACGCGATACTGACT
* * *
26396 TTCGCAACGCGATTCTAACT
1 ATCGCAACGCGATACTGACT
* * * *
26416 TTTGCAACGAGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
26436 ATCGTAACG
1 ATCGCAACG
26445 AAATAATACA
Statistics
Matches: 89, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
19 2 0.02
20 71 0.80
21 14 0.16
22 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:26622 original size:12 final size:12
Alignment explanation
Indices: 26603--26636 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
26593 CTCTCCGGCG
26603 ACATCCGTTCCT
1 ACATCCGTTCCT
*
26615 ATATCCGTTCCT
1 ACATCCGTTCCT
26627 ACATCC-TTCC
1 ACATCCGTTCC
26637 CCATCCGGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.18, C:0.41, G:0.06, T:0.35
Consensus pattern (12 bp):
ACATCCGTTCCT
Found at i:29786 original size:19 final size:20
Alignment explanation
Indices: 29705--29798 Score: 68
Period size: 20 Copynumber: 4.7 Consensus size: 20
29695 GGCAATCATT
*
29705 TGACTATCGCAACACGGAAA
1 TGACTATCGCAACGCGGAAA
* **
29725 TGACGT-TCGCAATCATC-TTAA
1 TGAC-TATCGCAA-C-GCGGAAA
*
29746 TGTCTATCGCAACGCGGAAA
1 TGACTATCGCAACGCGGAAA
*
29766 TGACTATCGCAATGC-GAAA
1 TGACTATCGCAACGCGGAAA
**
29785 TGAAAATCGCAACG
1 TGACTATCGCAACG
29799 AGAGAATCGC
Statistics
Matches: 57, Mismatches: 12, Indels: 11
0.71 0.15 0.14
Matches are distributed among these distances:
19 16 0.28
20 27 0.47
21 13 0.23
22 1 0.02
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.21
Consensus pattern (20 bp):
TGACTATCGCAACGCGGAAA
Found at i:29816 original size:33 final size:33
Alignment explanation
Indices: 29771--29888 Score: 148
Period size: 33 Copynumber: 3.4 Consensus size: 33
29761 GGAAATGACT
* * *
29771 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
29804 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
29837 ATCGCAACGCGAAACT-AAAATCGCAACGCGAAACTAAA
1 ATCGCAACGCGAAA-TGAAAATCGCAA--CG--AC-AAA
29875 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
29889 CTAAATTCGC
Statistics
Matches: 76, Mismatches: 3, Indels: 7
0.88 0.03 0.08
Matches are distributed among these distances:
33 54 0.71
34 1 0.01
35 2 0.03
37 2 0.03
38 17 0.22
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:29827 original size:19 final size:19
Alignment explanation
Indices: 29751--29888 Score: 120
Period size: 19 Copynumber: 7.7 Consensus size: 19
29741 CTTAATGTCT
**
29751 ATCGCAACGCGGAAATGACT
1 ATCGCAACGC-GAAATGAAA
*
29771 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
29790 ATCGCAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
29804 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
29823 ATCGCAA--CG--A-CAAA
1 ATCGCAACGCGAAATGAAA
29837 ATCGCAACGCGAAACT-AAA
1 ATCGCAACGCGAAA-TGAAA
29856 ATCGCAACGCGAAACT-AAA
1 ATCGCAACGCGAAA-TGAAA
29875 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
29889 CTAAATTCGC
Statistics
Matches: 101, Mismatches: 6, Indels: 23
0.78 0.05 0.18
Matches are distributed among these distances:
14 20 0.20
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 60 0.59
20 9 0.09
ACGTcount: A:0.45, C:0.24, G:0.20, T:0.11
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:29905 original size:19 final size:19
Alignment explanation
Indices: 29803--29899 Score: 134
Period size: 19 Copynumber: 5.4 Consensus size: 19
29793 GCAACGAGAG
29803 AATCGCAACGCGAAA-TGAA
1 AATCGCAACGCGAAACT-AA
29822 AATCGCAA--CG--AC-AA
1 AATCGCAACGCGAAACTAA
29836 AATCGCAACGCGAAACTAA
1 AATCGCAACGCGAAACTAA
29855 AATCGCAACGCGAAACTAA
1 AATCGCAACGCGAAACTAA
29874 AATCGCAACGCGAAACTAA
1 AATCGCAACGCGAAACTAA
*
29893 ATTCGCA
1 AATCGCA
29900 TTGCGATTTT
Statistics
Matches: 71, Mismatches: 1, Indels: 12
0.85 0.01 0.14
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 2 0.03
19 54 0.76
ACGTcount: A:0.46, C:0.26, G:0.16, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAACTAA
Found at i:29942 original size:33 final size:33
Alignment explanation
Indices: 29900--29991 Score: 157
Period size: 33 Copynumber: 2.8 Consensus size: 33
29890 TAAATTCGCA
* *
29900 TTGCGATTTTCATTTCACTTTGCGATTCCCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCCCTCG
*
29933 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCCCTCG
29966 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
29992 AGTCATTTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.13, C:0.24, G:0.17, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCCCTCG
Found at i:29957 original size:19 final size:19
Alignment explanation
Indices: 29894--29991 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
29884 CGAAACTAAA
29894 TTCGCATTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
* * *
29913 TTCACTTTGCGA--TTC-C
1 TTCGCATTGCGATTTTCAT
*
29929 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
29946 TTCGCATTGCGA--TTC-T
1 TTCGCATTGCGATTTTCAT
*
29962 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
29979 TTCGCATTGCGAT
1 TTCGCATTGCGAT
29992 AGTCATTTTT
Statistics
Matches: 60, Mismatches: 9, Indels: 20
0.67 0.10 0.22
Matches are distributed among these distances:
14 12 0.20
16 12 0.20
17 13 0.22
19 23 0.38
ACGTcount: A:0.13, C:0.24, G:0.17, T:0.45
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:30117 original size:14 final size:14
Alignment explanation
Indices: 30098--30134 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
30088 CATCAATTAA
30098 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
30112 ACAAATCATCTTTT
1 ACAAATCAACTTTT
30126 ACAAATCAA
1 ACAAATCAA
30135 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:31568 original size:42 final size:41
Alignment explanation
Indices: 31483--31605 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
31473 GTGAATCGGG
* * * *
31483 CTCTTGAATGGTGGGA-GGGACTTCTTCAATGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGAC-TC-TCGAGGATGACAGGGGC
*
31525 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGACAGGGGC
* * * * *
31567 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGACAGG
31606 CGAGTCGGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.06
42 56 0.84
43 7 0.10
ACGTcount: A:0.23, C:0.17, G:0.37, T:0.24
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGACAGGGGC
Found at i:32039 original size:21 final size:21
Alignment explanation
Indices: 32002--32058 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 21
31992 TCTGGAACTT
* *
32002 AAAATCACAACGTGAAAAATG
1 AAAATCGCAACGCGAAAAATG
**
32023 ACTATCGCAACGCG--AAATG
1 AAAATCGCAACGCGAAAAATG
32042 AAAATCGCAACGCGAAA
1 AAAATCGCAACGCGAAA
32059 CCAAAAGACA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
19 17 0.61
21 11 0.39
ACGTcount: A:0.49, C:0.21, G:0.18, T:0.12
Consensus pattern (21 bp):
AAAATCGCAACGCGAAAAATG
Found at i:32064 original size:19 final size:19
Alignment explanation
Indices: 32026--32064 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
32016 AAAAATGACT
**
32026 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAACCAAA
32045 ATCGCAACGCGAAACCAAA
1 ATCGCAACGCGAAACCAAA
32064 A
1 A
32065 GACAAAACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.49, C:0.26, G:0.18, T:0.08
Consensus pattern (19 bp):
ATCGCAACGCGAAACCAAA
Found at i:32262 original size:94 final size:94
Alignment explanation
Indices: 32158--32413 Score: 460
Period size: 94 Copynumber: 2.7 Consensus size: 94
32148 ATGGATTGTA
* *
32158 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCAGAGTATTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
32222 TTAACAGAATTGGCAGCAAACGAACAAAT
66 TTAACAGAATTGGCAGCAAACGAACAAAT
*
32251 TTACTTTCAACCAAAAGACAAAACAAAGACAAATATTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
* *
32316 TTAGCAGAATTGGCAGCAACCGAACAAAT
66 TTAACAGAATTGGCAGCAAACGAACAAAT
32345 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
32410 TTAA
66 TTAA
32414 TCTAAGTGAA
Statistics
Matches: 155, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
93 4 0.03
94 151 0.97
ACGTcount: A:0.49, C:0.19, G:0.11, T:0.21
Consensus pattern (94 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
TTAACAGAATTGGCAGCAAACGAACAAAT
Found at i:32777 original size:21 final size:21
Alignment explanation
Indices: 32753--32827 Score: 52
Period size: 21 Copynumber: 3.7 Consensus size: 21
32743 GTGACGGCAT
*
32753 AGGTGATGGCTCTCGTTGTAG
1 AGGTGATGGCTCTCGTCGTAG
* * *
32774 AGGTGTATAG-TCTGGTCG-ATC
1 AGGTG-ATGGCTCTCGTCGTA-G
*
32795 AGGTGATGGCTCT-G-GGT-G
1 AGGTGATGGCTCTCGTCGTAG
32813 AGGTGATGGCTCTCG
1 AGGTGATGGCTCTCG
32828 AAGTGGAGGA
Statistics
Matches: 42, Mismatches: 7, Indels: 12
0.69 0.11 0.20
Matches are distributed among these distances:
18 13 0.31
19 2 0.05
20 5 0.12
21 19 0.45
22 3 0.07
ACGTcount: A:0.15, C:0.15, G:0.40, T:0.31
Consensus pattern (21 bp):
AGGTGATGGCTCTCGTCGTAG
Found at i:34172 original size:19 final size:19
Alignment explanation
Indices: 34082--34189 Score: 118
Period size: 20 Copynumber: 5.8 Consensus size: 19
34072 TCTTTTGGTT
34082 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
34101 GATAATGAAAATCGCAACGCA
1 GA-AATGAAAATCGCAACG-A
** *
34122 GAAATGACTATTGCAACGA
1 GAAATGAAAATCGCAACGA
*
34141 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
*
34155 GAAATGAAAATCGTAACGA
1 GAAATGAAAATCGCAACGA
34174 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
34190 TGCGATTTTG
Statistics
Matches: 73, Mismatches: 9, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
14 9 0.12
16 2 0.03
17 2 0.03
19 28 0.38
20 29 0.40
21 3 0.04
ACGTcount: A:0.48, C:0.17, G:0.21, T:0.14
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:34173 original size:33 final size:34
Alignment explanation
Indices: 34082--34175 Score: 91
Period size: 33 Copynumber: 2.6 Consensus size: 34
34072 TCTTTTGGTT
34082 GAAATGAAAATCGCAACGAGATAATGAAAATCGCAACGCA
1 GAAATGAAAATCGCAACGAG---A-G--AATCGCAACGCA
** *
34122 GAAATGACTATTGCAACGAGAGAATCGCAACGC-
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGCA
*
34155 GAAATGAAAATCGTAACGAGA
1 GAAATGAAAATCGCAACGAGA
34176 AATGAAAATC
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
33 17 0.36
34 11 0.23
36 1 0.02
37 1 0.02
40 17 0.36
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.14
Consensus pattern (34 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGCA
Found at i:34809 original size:20 final size:20
Alignment explanation
Indices: 34786--34875 Score: 108
Period size: 20 Copynumber: 4.5 Consensus size: 20
34776 CGATAGTCAG
*
34786 ATTCACATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* *
34806 ATTCGCATTGCGATTTTCCT
1 ATTCGCATTGCGATTTACGT
*
34826 AATTCGCATTGCGATTTACTT
1 -ATTCGCATTGCGATTTACGT
* * *
34847 AATCGCGTTGTGATTTACGT
1 ATTCGCATTGCGATTTACGT
34867 ATTCGCATT
1 ATTCGCATT
34876 ACGAATTATG
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
20 40 0.69
21 18 0.31
ACGTcount: A:0.21, C:0.20, G:0.17, T:0.42
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:34843 original size:41 final size:40
Alignment explanation
Indices: 34786--34875 Score: 108
Period size: 41 Copynumber: 2.2 Consensus size: 40
34776 CGATAGTCAG
* * *
34786 ATTCACATTGCGATTTACGTATTCGCATTGCGATTTTCCT
1 ATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACCT
* * * *
34826 AATTCGCATTGCGATTTACTTAATCGCGTTGTGATTTACGT
1 -ATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACCT
34867 ATTCGCATT
1 ATTCGCATT
34876 ACGAATTATG
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
40 9 0.21
41 33 0.79
ACGTcount: A:0.21, C:0.20, G:0.17, T:0.42
Consensus pattern (40 bp):
ATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACCT
Found at i:34901 original size:21 final size:21
Alignment explanation
Indices: 34877--34931 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
34867 ATTCGCATTA
*
34877 CGAATTATGAAAATCGCAACG
1 CGAATTACGAAAATCGCAACG
* *
34898 CGAA-TACGTAAATCGCAATG
1 CGAATTACGAAAATCGCAACG
*
34918 CGAATTAGGAAAAT
1 CGAATTACGAAAAT
34932 TGCATTGCGA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.44, C:0.16, G:0.20, T:0.20
Consensus pattern (21 bp):
CGAATTACGAAAATCGCAACG
Found at i:34940 original size:21 final size:21
Alignment explanation
Indices: 34877--34941 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
34867 ATTCGCATTA
* *
34877 CGAATTATGAAAATCGCAACG
1 CGAATTACGAAAATCGCAATG
*
34898 CGAA-TACGTAAATCGCAATG
1 CGAATTACGAAAATCGCAATG
* * *
34918 CGAATTAGGAAAATTGCATTG
1 CGAATTACGAAAATCGCAATG
34939 CGA
1 CGA
34942 TAATCAGTAT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 17 0.47
21 19 0.53
ACGTcount: A:0.40, C:0.17, G:0.22, T:0.22
Consensus pattern (21 bp):
CGAATTACGAAAATCGCAATG
Found at i:35044 original size:21 final size:22
Alignment explanation
Indices: 34992--35044 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
34982 ATTTACTTAT
34992 TCGCATTGCG-AATTGTGAAAA
1 TCGCATTGCGAAATTGTGAAAA
* **
35013 ACGCAACGCGAAATTG-GAAAA
1 TCGCATTGCGAAATTGTGAAAA
35034 TCGCATTGCGA
1 TCGCATTGCGA
35045 TAGTCATAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 20 0.80
22 5 0.20
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGTGAAAA
Found at i:48767 original size:18 final size:18
Alignment explanation
Indices: 48744--48778 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
48734 TTCCATCCGG
*
48744 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
48762 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
48779 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:50088 original size:13 final size:13
Alignment explanation
Indices: 50066--50096 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
50056 CGACGGTCAA
*
50066 CGGGTCAACGGGT
1 CGGGTAAACGGGT
50079 CGGGTAAACGGGT
1 CGGGTAAACGGGT
50092 CGGGT
1 CGGGT
50097 CGGGTTGTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.16, C:0.19, G:0.48, T:0.16
Consensus pattern (13 bp):
CGGGTAAACGGGT
Found at i:51062 original size:38 final size:38
Alignment explanation
Indices: 51011--51088 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
51001 AAAATATATA
51011 ATAATAATTATTATATTAAATTTATTATATTTTAAAGG
1 ATAATAATTATTATATTAAATTTATTATATTTTAAAGG
51049 ATAATAATTATTATATTAAATTTATTATATTTTAAAGG
1 ATAATAATTATTATATTAAATTTATTATATTTTAAAGG
51087 AT
1 AT
51089 GACTATACGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (38 bp):
ATAATAATTATTATATTAAATTTATTATATTTTAAAGG
Found at i:52038 original size:16 final size:17
Alignment explanation
Indices: 52019--52055 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
52009 TAAAATATTA
52019 TTTTA-AATAATTAC-AT
1 TTTTATAATAA-TACGAT
52035 TTTTATAATAATACGAT
1 TTTTATAATAATACGAT
52052 TTTT
1 TTTT
52056 TCATCCCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (17 bp):
TTTTATAATAATACGAT
Found at i:52108 original size:16 final size:15
Alignment explanation
Indices: 52064--52110 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
52054 TTTCATCCCA
*
52064 TAAAATTATAAATAT
1 TAAAAATATAAATAT
*
52079 T-AAAATATTGAATAT
1 TAAAAATA-TAAATAT
52094 TAAAAATATAAAATAT
1 TAAAAATAT-AAATAT
52110 T
1 T
52111 TTAAATTCTC
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
14 5 0.19
15 9 0.35
16 12 0.46
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (15 bp):
TAAAAATATAAATAT
Found at i:65507 original size:21 final size:21
Alignment explanation
Indices: 65483--65530 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
65473 TAAACGTAAC
65483 ATCCATAACAACAAACTTTAA
1 ATCCATAACAACAAACTTTAA
*
65504 ATCCATAACAACCAACTTTAA
1 ATCCATAACAACAAACTTTAA
65525 ATCCAT
1 ATCCAT
65531 TATAATAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.25
Consensus pattern (21 bp):
ATCCATAACAACAAACTTTAA
Found at i:66727 original size:41 final size:41
Alignment explanation
Indices: 66652--66773 Score: 129
Period size: 41 Copynumber: 3.0 Consensus size: 41
66642 ATCGTTTATT
* * * *
66652 ACAAAAATGCCACTAAATTA-AAGGACTATTGCGGCGTTTGA
1 ACAAAAACGCCACTAAAATACAA-GTCTATAGCGGCGTTTGA
* *
66693 ACAAAAACGCCACTAAAATACAAGTCTATAGCGGCGCTTGT
1 ACAAAAACGCCACTAAAATACAAGTCTATAGCGGCGTTTGA
* * * * *
66734 ATAAAAACACCACTATAATGCAACTCTATAGCGGCGTTTG
1 ACAAAAACGCCACTAAAATACAAGTCTATAGCGGCGTTTG
66774 CTAAAGTCTA
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
41 66 0.97
42 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (41 bp):
ACAAAAACGCCACTAAAATACAAGTCTATAGCGGCGTTTGA
Found at i:67213 original size:42 final size:42
Alignment explanation
Indices: 67152--67281 Score: 170
Period size: 42 Copynumber: 3.1 Consensus size: 42
67142 CAATTGCGAT
* * * *
67152 GTTTATAATAAAAATGCCACTTAGGTACATGACTATTACGGC
1 GTTTATTATAAAAAAGCCACTAAAGTACATGACTATTACGGC
* **
67194 GTTTATTATAAAAAAGCCACTAAATTACATGGTTATTACGGC
1 GTTTATTATAAAAAAGCCACTAAAGTACATGACTATTACGGC
* * *
67236 ATTTATTATACAAAAGCCACTAAAGTACATGACTATTGCGGC
1 GTTTATTATAAAAAAGCCACTAAAGTACATGACTATTACGGC
67278 GTTT
1 GTTT
67282 GAAAAAAACA
Statistics
Matches: 74, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 74 1.00
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.32
Consensus pattern (42 bp):
GTTTATTATAAAAAAGCCACTAAAGTACATGACTATTACGGC
Found at i:67537 original size:83 final size:82
Alignment explanation
Indices: 67398--67589 Score: 222
Period size: 83 Copynumber: 2.3 Consensus size: 82
67388 GTATTTAGCG
* * * ** *
67398 TGTTTGTATAAAAGTGCCGCTAAATTACTACTCTGGTGTGGCGTTTGTTAAAAAAATGCCACTAT
1 TGTTTGTATAAAA-TGCCGCTAAAGTACTACTATGATACGACGTTTGTTAAAAAAATGCCACTAT
* *
67463 ATATGAAACCTATTGTGT
65 AGATGAAACCTATTGCGT
* *
67481 TGTTTGTCTAACAATGCCGCTAAAGTACTACTATGATACGACGTTTGTTGAAAAAATGCCACTAT
1 TGTTTGTATAA-AATGCCGCTAAAGTACTACTATGATACGACGTTTGTTAAAAAAATGCCACTAT
* * *
67546 AGATTAATCTTATTGCGT
65 AGATGAAACCTATTGCGT
**
67564 CATTTGTATAAAAATGCCGCTAAAGT
1 TGTTTGTAT-AAAATGCCGCTAAAGT
67590 TATCATTTGT
Statistics
Matches: 91, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
83 87 0.96
84 4 0.04
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.35
Consensus pattern (82 bp):
TGTTTGTATAAAATGCCGCTAAAGTACTACTATGATACGACGTTTGTTAAAAAAATGCCACTATA
GATGAAACCTATTGCGT
Found at i:69046 original size:20 final size:20
Alignment explanation
Indices: 69021--69058 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
69011 CACATGTTAA
69021 AGAATGCATCGATGCACTAT
1 AGAATGCATCGATGCACTAT
69041 AGAATGCATCGATGCACT
1 AGAATGCATCGATGCACT
69059 TCAAGGGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (20 bp):
AGAATGCATCGATGCACTAT
Found at i:70120 original size:23 final size:23
Alignment explanation
Indices: 70052--70112 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
70042 ACATTTTATA
70052 TGGCACTTCGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
* *
70075 CGGTACTTCGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
*
70098 TGGCACTTCGATGCA
1 TGGCACTTCGGTGCA
70113 TTTATACGAG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.18, C:0.26, G:0.26, T:0.30
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:76267 original size:15 final size:15
Alignment explanation
Indices: 76247--76289 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
76237 ACTTCTGTGT
76247 TGAATCATTCAGAAC
1 TGAATCATTCAGAAC
* *
76262 TGAATCAGTCAGCAC
1 TGAATCATTCAGAAC
76277 TGAATCATTCAGA
1 TGAATCATTCAGA
76290 GGTGCGAAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (15 bp):
TGAATCATTCAGAAC
Found at i:76708 original size:2 final size:2
Alignment explanation
Indices: 76701--76750 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
76691 TTTTAAAAAT
76701 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
76743 TA TA TA TA
1 TA TA TA TA
76751 ATCCAAATCC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:78924 original size:24 final size:24
Alignment explanation
Indices: 78897--78958 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
78887 CGTTCGTGAA
*
78897 CGTTCGGTTATGTTCGTTTATATG
1 CGTTCAGTTATGTTCGTTTATATG
* *
78921 CGTTTAGTTATGTTCGTTTATGTG
1 CGTTCAGTTATGTTCGTTTATATG
*
78945 CGTTCATTTATGTT
1 CGTTCAGTTATGTT
78959 TAACCTAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.13, C:0.11, G:0.23, T:0.53
Consensus pattern (24 bp):
CGTTCAGTTATGTTCGTTTATATG
Found at i:80102 original size:16 final size:16
Alignment explanation
Indices: 80081--80147 Score: 93
Period size: 16 Copynumber: 4.3 Consensus size: 16
80071 GTCTCAAACG
80081 TTTATGTTCGTGTTCA
1 TTTATGTTCGTGTTCA
*
80097 TTTATGTTCGTGTTCG
1 TTTATGTTCGTGTTCA
* *
80113 TTTATGTTTGTGTTCG
1 TTTATGTTCGTGTTCA
80129 TTTATGTTCGT-TT-A
1 TTTATGTTCGTGTTCA
80143 TTTAT
1 TTTAT
80148 TAAATGAACG
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
14 5 0.11
15 2 0.04
16 40 0.85
ACGTcount: A:0.10, C:0.09, G:0.19, T:0.61
Consensus pattern (16 bp):
TTTATGTTCGTGTTCA
Found at i:80120 original size:32 final size:32
Alignment explanation
Indices: 80079--80139 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
80069 GGGTCTCAAA
80079 CGTTTATGTTCGTGTTCATTTATGTTCGTGTT
1 CGTTTATGTTCGTGTTCATTTATGTTCGTGTT
* *
80111 CGTTTATGTTTGTGTTCGTTTATGTTCGT
1 CGTTTATGTTCGTGTTCATTTATGTTCGT
80140 TTATTTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.08, C:0.11, G:0.23, T:0.57
Consensus pattern (32 bp):
CGTTTATGTTCGTGTTCATTTATGTTCGTGTT
Found at i:81014 original size:27 final size:27
Alignment explanation
Indices: 80933--81014 Score: 64
Period size: 27 Copynumber: 3.1 Consensus size: 27
80923 TTAGTCCCTT
* * *
80933 AATTTTTTATAATTTCCTTATTTATTC
1 AATTTTTCATAATTTCTTTATTTCTTC
* * * *
80960 AA---TTCATCATGTATTTATTCCCTT-
1 AATTTTTCATAATTTCTTTATT-TCTTC
80984 AATTTTTCATAATTTCTTTATTTCTTC
1 AATTTTTCATAATTTCTTTATTTCTTC
81011 AATT
1 AATT
81015 CAATTTTAAG
Statistics
Matches: 39, Mismatches: 11, Indels: 10
0.65 0.18 0.17
Matches are distributed among these distances:
24 14 0.36
25 2 0.05
26 3 0.08
27 20 0.51
ACGTcount: A:0.26, C:0.15, G:0.01, T:0.59
Consensus pattern (27 bp):
AATTTTTCATAATTTCTTTATTTCTTC
Found at i:89368 original size:28 final size:29
Alignment explanation
Indices: 89337--89392 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
89327 TTTAATCAAG
89337 AAAAATA-TTAAAAATTA-ATATAGAATAC
1 AAAAATAGTTAAAAATTATATATA-AATAC
* *
89365 AAAATTAGTTAAAATTTATATATAAATA
1 AAAAATAGTTAAAAATTATATATAAATA
89393 TGTTATTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 6 0.25
29 13 0.54
30 5 0.21
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.34
Consensus pattern (29 bp):
AAAAATAGTTAAAAATTATATATAAATAC
Found at i:91950 original size:2 final size:2
Alignment explanation
Indices: 91888--91933 Score: 62
Period size: 2 Copynumber: 24.0 Consensus size: 2
91878 CCGCTCAAAT
91888 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TCA TA T- TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA
91928 TA TA TA
1 TA TA TA
91934 ATAAATTAAC
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
1 3 0.08
2 35 0.88
3 2 0.05
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:93187 original size:13 final size:13
Alignment explanation
Indices: 93154--93178 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
93144 TATTGCTTAT
93154 TTTATTTTATTTA
1 TTTATTTTATTTA
93167 TTTATTTTATTT
1 TTTATTTTATTT
93179 CTTATTTTTT
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:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTATTTTATTTA
Found at i:98510 original size:165 final size:164
Alignment explanation
Indices: 98236--99176 Score: 1151
Period size: 165 Copynumber: 5.7 Consensus size: 164
98226 TAAACAAACT
*
98236 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTTGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
* *
98301 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACC
66 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCACC-AAAGACC
98366 TTTGAGTTCGACTACGCTCAGCT-CAACGGCACATC
130 TTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATC
98401 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
* * * * *
98466 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATATGCCAACCAAAGACC
66 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTC-ACCAAAGACC
98531 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
130 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
*
98566 ATTTGTAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
* * *
98631 GCTTCGAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATTTGTCACCAAAGACCT
66 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCACCAAAGACCT
*
98696 TCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
131 TTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
98730 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAAGACCCCCGAGTTCGATTACACTC
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCC-AAAGACCCCCGAGTTCGATTACACTC
* * * *
98795 AGCTT-GAGGGCATATCATTTACAGCATAACTCAAGGCTATAA-GGTTATATGTCACCAAAGACC
65 AGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCACCAAAGACC
* *
98858 TTCGAGTTCGACTACACTCAGCTCCAAGGCACATC
130 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * * * * *** **
98893 ATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGATTATG
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-C--C-AAAGACCCCCGAGTTCGATTACA
* * * ** * * * *
98958 CTCAGC-TCCAAGGCATATCATTTGTAGCATAGCTTAAGTCGAGAAGGGCTATCTG---CCAAAG
62 CTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCACCAAAG
* * * * * * *
99019 ACCCTTAAGTTTGATTACACTCAGCTTCAAGGGCATATC
127 ACCTTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATC
* * * * * * * * ***
99058 ATTTACAACATAACTCAAGGCTAGAAGAGTTATCTGTCAACAAAGACCTTTGAGTTCGATTACAC
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-C--CAAAGACCCCCGAGTTCGATTACAC
* * * * * * *
99123 TCAGC-TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG
63 TCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTG
99177 CCAAAGACCC
Statistics
Matches: 706, Mismatches: 61, Indels: 19
0.90 0.08 0.02
Matches are distributed among these distances:
163 85 0.12
164 222 0.31
165 332 0.47
166 60 0.08
167 7 0.01
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (164 bp):
ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCACCAAAGACCT
TTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
Found at i:99003 original size:411 final size:412
Alignment explanation
Indices: 98437--99242 Score: 1328
Period size: 411 Copynumber: 2.0 Consensus size: 412
98427 GGGCTATCTG
* * * *
98437 CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGT
1 CCAAAGACCCCCGAGTTCGACTACACTCAGCTTCCAAGGCACATCATTTGCAGCACAACTTAAGT
*
98502 CGAGAAGGGTTATATGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCA
66 CGAGAAGGGTTATATGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCA
*
98567 TTTGTAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAG
131 TTTGTAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCAAGTTCGATTACACTCAG
* * * * *
98632 CTTCGAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATTTGTCACCAAAGACCTT
196 CTTCAAGGGCATATCATTTACAACATAACTCAAGGCTAGAAGAGTTATCTGTCAACAAAGACCTT
*
98697 CGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTA
261 CGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTA
* *
98762 TCTGCCAAAAGACCCCCGAGTTCGATTACACTCAGCTT-GAGGGCATATCATTTACAGCATAACT
326 TCTGCC-AAAGACCCCCGAGTTCGATTACACTCAACTTCGAGGGCATATCATTTACAACATAACT
98826 CAAGGCTATAAGGTTATATGTCA
390 CAAGGCTATAAGGTTATATGTCA
**
98849 CCAAAGACCTTCGAGTTCGACTACACTCAGC-TCCAAGGCACATCATTTGCAGCACAACTTAAGT
1 CCAAAGACCCCCGAGTTCGACTACACTCAGCTTCCAAGGCACATCATTTGCAGCACAACTTAAGT
* * * * * *
98913 CTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGATTATGCTCAGCTCCAAGGCATATCA
66 CGAGAAGGGTTATATGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCA
** *
98978 TTTGTAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTTAAGTTTGATTACACTCAG
131 TTTGTAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCAAGTTCGATTACACTCAG
99043 CTTCAAGGGCATATCATTTACAACATAACTCAAGGCTAGAAGAGTTATCTGTCAACAAAGACCTT
196 CTTCAAGGGCATATCATTTACAACATAACTCAAGGCTAGAAGAGTTATCTGTCAACAAAGACCTT
* *
99108 TGAGTTCGATTACACTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTA
261 CGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTA
* *
99173 TCTGCCAAAGACCCCCGAGTTCGATTACACTCAACTTCGAGGTCATATCATTTACAACATAGCTC
326 TCTGCCAAAGACCCCCGAGTTCGATTACACTCAACTTCGAGGGCATATCATTTACAACATAACTC
99238 AAGGC
391 AAGGC
99243 AAGAAGGACT
Statistics
Matches: 364, Mismatches: 29, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
410 30 0.08
411 306 0.84
412 28 0.08
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (412 bp):
CCAAAGACCCCCGAGTTCGACTACACTCAGCTTCCAAGGCACATCATTTGCAGCACAACTTAAGT
CGAGAAGGGTTATATGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCA
TTTGTAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCAAGTTCGATTACACTCAG
CTTCAAGGGCATATCATTTACAACATAACTCAAGGCTAGAAGAGTTATCTGTCAACAAAGACCTT
CGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTA
TCTGCCAAAGACCCCCGAGTTCGATTACACTCAACTTCGAGGGCATATCATTTACAACATAACTC
AAGGCTATAAGGTTATATGTCA
Found at i:99108 original size:164 final size:165
Alignment explanation
Indices: 98449--99248 Score: 580
Period size: 164 Copynumber: 4.8 Consensus size: 165
98439 AAAGACCCCC
* * * *
98449 GAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTA
1 GAGTTCGATTACACTCAGC-TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTA
* **** * * * * ** *
98514 TATGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGTAGCATA
65 TCTG----CCAAAGACCCCCAAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACAACATA
* * * * * * ***
98578 GCTTAAGTCGAGAAGGGCTATCTG-C--C-AAAGACCCCC
126 ACTCAAGGCTAGAAGAGTTATCTGCCAACAAAAGACCTTT
* * * * * * * * *
98614 GAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTA
1 GAGTTCGATTACACTCAGC-TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTA
* ** * * * * * * * *
98679 TTTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCATAG
65 TCTG---CCAAAGACCCCCAAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACAACATAA
* * * * * ***
98743 CTTAAGTCGAGAAGGGCTATCTG-C--CAAAAGACCCCC
127 CTCAAGGCTAGAAGAGTTATCTGCCAACAAAAGACCTTT
** * * * * * * * * *
98779 GAGTTCGATTACACTCAGCTTGAGGGCATATCATTTACAGCATAACTCAAGGCTATAA-GGTTAT
1 GAGTTCGATTACACTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTAT
* ** * * * * * * *
98843 ATGTCACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAA-GGCACATCATTTGCAGCACAAC
66 CTG---CCAAAGACCCCCAAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACAACATAAC
* * * *
98907 TTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTT
128 TCAAGGCTAGAAGAGTTATCTGCCAACAAAAGACCTTT
** * *
98945 GAGTTCGATTATGCTCAGCTCCAAGGCATATCATTTGTAGCATAGCTTAAGTCGAGAAGGGCTAT
1 GAGTTCGATTACACTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTAT
** *
99010 CTGCCAAAGACCCTTAAGTTTGATTACACTCAGCTTCAAGGGCATATCATTTACAACATAACTCA
66 CTGCCAAAGACCCCCAAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACAACATAACTCA
*
99075 AGGCTAGAAGAGTTATCTGTCAAC-AAAGACCTTT
131 AGGCTAGAAGAGTTATCTGCCAACAAAAGACCTTT
99109 GAGTTCGATTACACTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTAT
1 GAGTTCGATTACACTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTAT
* * * * *
99174 CTGCCAAAGACCCCCGAGTTCGATTACACTCAACTTCGAGGTCATATCATTTACAACATAGCTCA
66 CTGCCAAAGACCCCCAAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACAACATAACTCA
*
99239 AGGCAAGAAG
131 AGGCTAGAAG
99249 GACTATTTGT
Statistics
Matches: 565, Mismatches: 64, Indels: 13
0.88 0.10 0.02
Matches are distributed among these distances:
163 85 0.15
164 286 0.51
165 132 0.23
166 55 0.10
167 7 0.01
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.25
Consensus pattern (165 bp):
GAGTTCGATTACACTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTAT
CTGCCAAAGACCCCCAAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACAACATAACTCA
AGGCTAGAAGAGTTATCTGCCAACAAAAGACCTTT
Found at i:99281 original size:411 final size:412
Alignment explanation
Indices: 98273--99261 Score: 1313
Period size: 411 Copynumber: 2.4 Consensus size: 412
98263 GGCTATCTGC
** * * * * * * * *
98273 CAAAGACCCCCGAGTTTGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGC
1 CAAAGACCTTCGAGTTCGACTACACTCAGC-TCCAAGGCACATCATTTGCAGCATAGCTTAAGTC
* * *** * * * ** * *
98338 TAGAAGGGTTATCTGTGACCAAAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCAT
65 GAGAAGGGCTATC--TG-CCAAAAGACCCCCGAGTTCGATTACACTCAACTTGAGGGCATATCAT
* * * * * * * ** *
98403 TTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-C--CAAAGACCCCCGAGTTCGATTACACTC
127 TTACAACATAACTCAAGGCAAGAA-GGCTATATGTCAACAAAGACCTTCGAGTTCGACTACACTC
* * * *
98465 AGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATATGCCAACCAAAGAC
191 AGCTTCCAAGGCACATCATTTGCAGCACAACTTAAGTCGAGAAGGGTTATATGCCAACAAAAGAC
98530 CTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGTAGCATAGCTTAAGTCGAGAAGGG
256 CTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGTAGCATAGCTTAAGTCGAGAAGGG
* * *
98595 CTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTACAGCATAA
321 CTATCTGCCAAAGACCCCCAAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACAACATAA
* * *
98660 CTCAAGGCTAGAAGGGTTATTTGTCAC
386 CTCAAGGCTAGAAGAGTTATCTGTCAA
*
98687 CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCG
1 CAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCG
*
98752 AGAAGGGCTATCTGCCAAAAGACCCCCGAGTTCGATTACACTCAGCTTGAGGGCATATCATTTAC
66 AGAAGGGCTATCTGCCAAAAGACCCCCGAGTTCGATTACACTCAACTTGAGGGCATATCATTTAC
* * * * *
98817 AGCATAACTCAAGGCTATAAGGTTATATGTCACCAAAGACCTTCGAGTTCGACTACACTCAGC-T
131 AACATAACTCAAGGCAAGAAGGCTATATGTCAACAAAGACCTTCGAGTTCGACTACACTCAGCTT
* * *
98881 CCAAGGCACATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTG
196 CCAAGGCACATCATTTGCAGCACAACTTAAGTCGAGAAGGGTTATATGCCAACAAAAGACCTTTG
* * *
98946 AGTTCGATTATGCTCAGCTCCAAGGCATATCATTTGTAGCATAGCTTAAGTCGAGAAGGGCTATC
261 AGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGTAGCATAGCTTAAGTCGAGAAGGGCTATC
** *
99011 TGCCAAAGACCCTTAAGTTTGATTACACTCAGCTTCAAGGGCATATCATTTACAACATAACTCAA
326 TGCCAAAGACCCCCAAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACAACATAACTCAA
99076 GGCTAGAAGAGTTATCTGTCAA
391 GGCTAGAAGAGTTATCTGTCAA
* *
99098 CAAAGACCTTTGAGTTCGATTACACTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCG
1 CAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCG
*
99163 AGAAGGGCTATCTGCC-AAAGACCCCCGAGTTCGATTACACTCAACTTCGAGGTCATATCATTTA
66 AGAAGGGCTATCTGCCAAAAGACCCCCGAGTTCGATTACACTCAACTT-GAGGGCATATCATTTA
* *
99227 CAACATAGCTCAAGGCAAGAAGGACTATTTGTCAA
130 CAACATAACTCAAGGCAAGAAGG-CTATATGTCAA
99262 TAAAATTGTC
Statistics
Matches: 506, Mismatches: 64, Indels: 12
0.87 0.11 0.02
Matches are distributed among these distances:
409 7 0.01
410 87 0.17
411 313 0.62
412 35 0.07
413 39 0.08
414 25 0.05
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (412 bp):
CAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCG
AGAAGGGCTATCTGCCAAAAGACCCCCGAGTTCGATTACACTCAACTTGAGGGCATATCATTTAC
AACATAACTCAAGGCAAGAAGGCTATATGTCAACAAAGACCTTCGAGTTCGACTACACTCAGCTT
CCAAGGCACATCATTTGCAGCACAACTTAAGTCGAGAAGGGTTATATGCCAACAAAAGACCTTTG
AGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGTAGCATAGCTTAAGTCGAGAAGGGCTATC
TGCCAAAGACCCCCAAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACAACATAACTCAA
GGCTAGAAGAGTTATCTGTCAA
Found at i:101107 original size:13 final size:13
Alignment explanation
Indices: 101074--101098 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
101064 TATTGCTTAT
101074 TTTATTTTATTTA
1 TTTATTTTATTTA
101087 TTTATTTTATTT
1 TTTATTTTATTT
101099 CTTATTTTTT
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:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTATTTTATTTA
Found at i:101363 original size:6 final size:6
Alignment explanation
Indices: 101352--101379 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
101342 CGAAATGAAT
101352 TTTTAA TTTTAA TTTTAA TTTTAA TTTT
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTT
101380 CGTAATTAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTTAA
Found at i:107102 original size:17 final size:16
Alignment explanation
Indices: 107070--107106 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
107060 CATCAAATTT
107070 TATA-TAAATTATTAA
1 TATATTAAATTATTAA
107085 TATATTAAATTAATTAA
1 TATATTAAATT-ATTAA
107102 TATAT
1 TATAT
107107 AGTATTTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 4 0.20
16 6 0.30
17 10 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TATATTAAATTATTAA
Found at i:109151 original size:13 final size:13
Alignment explanation
Indices: 109133--109157 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
109123 ATAGTTGAAC
109133 AGTCTTCATATGT
1 AGTCTTCATATGT
109146 AGTCTTCATATG
1 AGTCTTCATATG
109158 CGAATATGTA
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:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (13 bp):
AGTCTTCATATGT
Found at i:109488 original size:2 final size:2
Alignment explanation
Indices: 109481--109524 Score: 65
Period size: 2 Copynumber: 23.0 Consensus size: 2
109471 AGATTTAGAA
*
109481 AT AT AT AT AT AA AT -T AT AT -T 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 AT AT
109521 AT AT
1 AT AT
109525 GGCGGCTGGT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
1 2 0.05
2 36 0.95
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:109814 original size:13 final size:12
Alignment explanation
Indices: 109787--109811 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
109777 TAGTACACTT
109787 ATAATAGATAAA
1 ATAATAGATAAA
109799 ATAATAGATAAA
1 ATAATAGATAAA
109811 A
1 A
109812 ATATCATTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (12 bp):
ATAATAGATAAA
Done.