Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002020.1 Hibiscus syriacus cultivar Beakdansim tig00004127_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: 79298
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:400 original size:23 final size:23
Alignment explanation
Indices: 374--487 Score: 133
Period size: 23 Copynumber: 5.0 Consensus size: 23
364 CACCACAGCT
*
374 CATATAATTGCACCGAAGTGCCA
1 CATATAATTGCACCGTAGTGCCA
* *
397 CATATAATTGCACCGGAGTG-CG
1 CATATAATTGCACCGTAGTGCCA
*
419 CATAGAATTGCACCGTAGTGCCA
1 CATATAATTGCACCGTAGTGCCA
* *
442 TATAATAATTGCACCG-AGTGCCG
1 CAT-ATAATTGCACCGTAGTGCCA
* *
465 CATAGAATTGTACCGTAGTGCCA
1 CATATAATTGCACCGTAGTGCCA
488 TATAATGTCC
Statistics
Matches: 76, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
22 29 0.38
23 36 0.47
24 11 0.14
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.24
Consensus pattern (23 bp):
CATATAATTGCACCGTAGTGCCA
Found at i:461 original size:45 final size:47
Alignment explanation
Indices: 374--493 Score: 183
Period size: 46 Copynumber: 2.6 Consensus size: 47
364 CACCACAGCT
* * *
374 CATATAATTGCACCGAAGTGCCACAT-ATAATTGCACCGGAGTG-CG
1 CATAGAATTGCACCGTAGTGCCATATAATAATTGCACCGGAGTGCCG
419 CATAGAATTGCACCGTAGTGCCATATAATAATTGCACC-GAGTGCCG
1 CATAGAATTGCACCGTAGTGCCATATAATAATTGCACCGGAGTGCCG
*
465 CATAGAATTGTACCGTAGTGCCATATAAT
1 CATAGAATTGCACCGTAGTGCCATATAAT
494 GTCCATAAGG
Statistics
Matches: 69, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
45 28 0.41
46 41 0.59
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.25
Consensus pattern (47 bp):
CATAGAATTGCACCGTAGTGCCATATAATAATTGCACCGGAGTGCCG
Found at i:666 original size:100 final size:102
Alignment explanation
Indices: 512--710 Score: 339
Period size: 100 Copynumber: 2.0 Consensus size: 102
502 GGACCACATA
* *
512 TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGACTTCACACATGTTC
1 TCCTTAAGAATCATATACATATACCAAGGATC-AGTATGTGTCTCACCAGACTTCACACATGTTC
577 CAAAGAATACATATATGTCCCGAA-GACCACATATCAT
65 CAAAGAATACATATATGTCCCGAAGGACCACATATCAT
*
614 TCCTTAAGAATCATATACATATGCCAAGGATC-GTATGTGTCTCACCAGACTTCACACATGTTCC
1 TCCTTAAGAATCATATACATATACCAAGGATCAGTATGTGTCTCACCAGACTTCACACATGTTCC
*
678 AAAGAATACATATATGTCTCGAAGGACCACATA
66 AAAGAATACATATATGTCCCGAAGGACCACATA
711 GACCCTCGAC
Statistics
Matches: 92, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
100 54 0.59
101 9 0.10
102 29 0.32
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.27
Consensus pattern (102 bp):
TCCTTAAGAATCATATACATATACCAAGGATCAGTATGTGTCTCACCAGACTTCACACATGTTCC
AAAGAATACATATATGTCCCGAAGGACCACATATCAT
Found at i:8250 original size:19 final size:19
Alignment explanation
Indices: 8226--8273 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
8216 GTAATTAGTG
8226 CATCGATGCATAAGGAGTA
1 CATCGATGCATAAGGAGTA
*
8245 CATCGATGCATAAGGAGTG
1 CATCGATGCATAAGGAGTA
*
8264 CAGCGATGCA
1 CATCGATGCA
8274 CCTGCTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.33, C:0.19, G:0.29, T:0.19
Consensus pattern (19 bp):
CATCGATGCATAAGGAGTA
Found at i:8959 original size:38 final size:38
Alignment explanation
Indices: 8906--8982 Score: 118
Period size: 38 Copynumber: 2.0 Consensus size: 38
8896 TCGAGGGATT
* * *
8906 ATCAGTGGTCTTTCGGGATATAGTGGTTCTTCGGAACA
1 ATCAGTGGTCATTCGGGACATAGTGGTCCTTCGGAACA
*
8944 ATCAGTGGTCATTCGGGACATAGTGGTCCTTCGGGACA
1 ATCAGTGGTCATTCGGGACATAGTGGTCCTTCGGAACA
8982 A
1 A
8983 ATATTTAGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.30
Consensus pattern (38 bp):
ATCAGTGGTCATTCGGGACATAGTGGTCCTTCGGAACA
Found at i:8980 original size:18 final size:18
Alignment explanation
Indices: 8909--8981 Score: 83
Period size: 18 Copynumber: 3.9 Consensus size: 18
8899 AGGGATTATC
* *
8909 AGTGGTCTTTCGGGATAT
1 AGTGGTCCTTCGGGACAT
* *
8927 AGTGGTTCTTCGGAACAAT
1 AGTGGTCCTTCGGGAC-AT
*
8946 CAGTGGTCATTCGGGACAT
1 -AGTGGTCCTTCGGGACAT
8965 AGTGGTCCTTCGGGACA
1 AGTGGTCCTTCGGGACA
8982 AATATTTAGT
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
18 28 0.62
19 4 0.09
20 13 0.29
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.30
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:22554 original size:30 final size:30
Alignment explanation
Indices: 22511--22567 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
22501 CGGCGTTTAG
* * *
22511 TTATTTTATGATAACAT-ATTAATATTATTA
1 TTATTTAACGATAA-ATAATTAAAATTATTA
22541 TTATTTAACGATAAATAATTAAAATTA
1 TTATTTAACGATAAATAATTAAAATTA
22568 AATATCATGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 2 0.09
30 21 0.91
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.47
Consensus pattern (30 bp):
TTATTTAACGATAAATAATTAAAATTATTA
Found at i:24890 original size:20 final size:20
Alignment explanation
Indices: 24865--24978 Score: 113
Period size: 20 Copynumber: 5.7 Consensus size: 20
24855 AATTGGGAAA
*
24865 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
24885 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTGACT
* * *
24905 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
24926 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
24946 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
24966 TTCGCAACGCGAT
1 ATCGCAACGCGAT
24979 TTACATAGCG
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
19 2 0.02
20 64 0.79
21 13 0.16
22 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:24911 original size:61 final size:61
Alignment explanation
Indices: 24862--24978 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
24852 GCGAATTGGG
* * * * *
24862 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * *
24923 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGAT
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGAT
24979 TTACATAGCG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:28061 original size:21 final size:22
Alignment explanation
Indices: 28021--28061 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
28011 ATGAGGTTTT
*
28021 AGGATGAGATTTGGGATGAATA
1 AGGATGAGATATGGGATGAATA
*
28043 AGGATGA-ATATGTGATGAA
1 AGGATGAGATATGGGATGAA
28062 CGGGAAAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.39, C:0.00, G:0.34, T:0.27
Consensus pattern (22 bp):
AGGATGAGATATGGGATGAATA
Found at i:29810 original size:19 final size:19
Alignment explanation
Indices: 29786--29828 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
29776 TAGGTCTCCA
*
29786 GGAGCACACGGCGACCTGT
1 GGAGCACACGGCGACCTAT
**
29805 GGAGCACTTGGCGACCTAT
1 GGAGCACACGGCGACCTAT
29824 GGAGC
1 GGAGC
29829 TACAACAGCG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.21, C:0.28, G:0.37, T:0.14
Consensus pattern (19 bp):
GGAGCACACGGCGACCTAT
Found at i:30854 original size:140 final size:136
Alignment explanation
Indices: 30665--31154 Score: 478
Period size: 137 Copynumber: 3.6 Consensus size: 136
30655 CCCTAAACTT
* * * *
30665 TTTAATTTA-GATGAATTGTTAATTTTGTCATCACATTTATGCCCGAGGTTCCATATTAATTATT
1 TTTAATTTAGGA-GAATT-TTAATTTGGTCATCGCTTTTATGCCCGAGGTTCCATTTTAATTATT
30729 CGATCCAATAAATTAATTAAAATTGATTAGGATTAATATTAGAGTC-TTCATTTTAGATTAATTT
64 CGATCCAATAAATT--TTAAAATTGATTAGGATTAATATTAGAG-CATTCATTTTAGATTAATTT
*
30793 CATGTTTAG-TC
126 CA-CTTTAGTTC
*
30804 ATTTAATTTAGGAGAATTATTAATTTGGTCATCGCTTTTATGCCCAAGGTTCCATTTTAATTATT
1 -TTTAATTTAGGAGAATT-TTAATTTGGTCATCGCTTTTATGCCCGAGGTTCCATTTTAATTATT
* * * * *
30869 TGATCCAATACTATTTTAAAATTGGTTAGGATTAATAATTAGAGCTTTCATTTTAGATTGATTTC
64 CGATCCAATA-AATTTTAAAATTGATTAGGATTAAT-ATTAGAGCATTCATTTTAGATTAATTTC
*
30934 ACTTTGGTTC
127 ACTTTAGTTC
* ** * * *
30944 TTTAATTTAGGTGAATTTTAA-TTGGTCCCCG-TATTTATGTCCGAGG-TCCTATTTTGATTACT
1 TTTAATTTAGGAGAATTTTAATTTGGTCATCGCT-TTTATGCCCGAGGTTCC-ATTTTAATTATT
* *
31006 CGATCCAATAAATTGTTAAAATT-AGTTAGGATTAATATTAGAGCATTCATTTTAGGTTTATTTT
64 CGATCCAATAAATT-TTAAAATTGA-TTAGGATTAATATTAGAGCATTCATTTTA-GATTAATTT
* *
31070 CACCTTAGTCC
126 CACTTTAGTTC
* * * * * * *
31081 CTTAATTTA-GATTATTTTTATTTTGTTCCTC-ATCTTTATGCCCGAGGTTCCATTTTAATT-TT
1 TTTAATTTAGGA-GAATTTTAATTTGGTCATCGCT-TTTATGCCCGAGGTTCCATTTTAATTATT
* *
31143 AGATTCAATAAA
64 CGATCCAATAAA
31155 ATTGATTTAG
Statistics
Matches: 294, Mismatches: 42, Indels: 31
0.80 0.11 0.08
Matches are distributed among these distances:
136 25 0.09
137 96 0.33
138 32 0.11
139 44 0.15
140 92 0.31
141 5 0.02
ACGTcount: A:0.29, C:0.12, G:0.13, T:0.46
Consensus pattern (136 bp):
TTTAATTTAGGAGAATTTTAATTTGGTCATCGCTTTTATGCCCGAGGTTCCATTTTAATTATTCG
ATCCAATAAATTTTAAAATTGATTAGGATTAATATTAGAGCATTCATTTTAGATTAATTTCACTT
TAGTTC
Found at i:31714 original size:21 final size:21
Alignment explanation
Indices: 31688--31844 Score: 114
Period size: 21 Copynumber: 7.6 Consensus size: 21
31678 GTTTCCAAAT
*
31688 TCGCAACGCGAACTTCGACTA
1 TCGCAATGCGAACTTCGACTA
*
31709 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTCGACTA
*
31730 TCGCAATGCGAA-TAT-GTA-AA
1 TCGCAATGCGAACT-TCG-ACTA
*
31750 TCGCAATGCGATA-GTCGACTA
1 TCGCAATGCGA-ACTTCGACTA
* *
31771 TCACAATGCGAA-TAT-GTA-AA
1 TCGCAATGCGAACT-TCG-ACTA
* *
31791 TCACAATGCGATA-GTCGACTA
1 TCGCAATGCGA-ACTTCGACTA
* *
31812 TCGCAATACGAACTTGGACTA
1 TCGCAATGCGAACTTCGACTA
31833 TCGCAATGCGAA
1 TCGCAATGCGAA
31845 TATGTAAATC
Statistics
Matches: 110, Mismatches: 15, Indels: 22
0.75 0.10 0.15
Matches are distributed among these distances:
20 33 0.30
21 77 0.70
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAACTTCGACTA
Found at i:31753 original size:41 final size:41
Alignment explanation
Indices: 31708--31823 Score: 171
Period size: 41 Copynumber: 2.8 Consensus size: 41
31698 AACTTCGACT
* *
31708 ATCGCAATGCGA-ACTTGGACTATCGCAATGCGAATATGTAA
1 ATCGCAATGCGATA-GTCGACTATCGCAATGCGAATATGTAA
*
31749 ATCGCAATGCGATAGTCGACTATCACAATGCGAATATGTAA
1 ATCGCAATGCGATAGTCGACTATCGCAATGCGAATATGTAA
* *
31790 ATCACAATGCGATAGTCGACTATCGCAATACGAA
1 ATCGCAATGCGATAGTCGACTATCGCAATGCGAA
31824 CTTGGACTAT
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
41 67 0.99
42 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (41 bp):
ATCGCAATGCGATAGTCGACTATCGCAATGCGAATATGTAA
Found at i:31878 original size:41 final size:42
Alignment explanation
Indices: 31853--31969 Score: 134
Period size: 41 Copynumber: 2.9 Consensus size: 42
31843 AATATGTAAA
31853 TCGCAATGCGATAGTCCAAGTTCGCATTGCG-ATTTACATAT
1 TCGCAATGCGATAGTCCAAGTTCGCATTGCGAATTTACATAT
* * * *
31894 TCGCATTGCGATAGTCCAAGTTCGCATTGCGATTTTCCAAAT
1 TCGCAATGCGATAGTCCAAGTTCGCATTGCGAATTTACATAT
* * * *
31936 TCG--TTGCAATAGTCGAAGTTCGCGTTGCG-ATTTA
1 TCGCAATGCGATAGTCCAAGTTCGCATTGCGAATTTA
31970 TTCCAAATTC
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
39 3 0.05
40 23 0.35
41 30 0.45
42 10 0.15
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.33
Consensus pattern (42 bp):
TCGCAATGCGATAGTCCAAGTTCGCATTGCGAATTTACATAT
Found at i:31878 original size:62 final size:60
Alignment explanation
Indices: 31685--31884 Score: 199
Period size: 62 Copynumber: 3.2 Consensus size: 60
31675 TCAGTTTCCA
* * *
31685 AATTCGCAACGCGAACTTCGACTATCGCAATGCGAACT-TGGACTATCGCAATGCGAATATGT-
1 AATTCGCAATGCGAACTTCGACTATCGCAATGCGAA-TATGTA-AATCGCAATGCG-ATA-GTC
* * * *
31747 AAATCGCAATGCGATA-GTCGACTATCACAATGCGAATATGTAAATCACAATGCGATAGTC
1 AATTCGCAATGCGA-ACTTCGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTC
* * *
31807 GACTATCGCAATACGAACTTGGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCC
1 -AAT-TCGCAATGCGAACTTCGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGT-C
*
31870 AAGTTCGCATTGCGA
1 AA-TTCGCAATGCGA
31885 TTTACATATT
Statistics
Matches: 113, Mismatches: 17, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
59 2 0.02
60 3 0.03
61 13 0.12
62 92 0.81
63 3 0.03
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (60 bp):
AATTCGCAATGCGAACTTCGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTC
Found at i:31883 original size:21 final size:21
Alignment explanation
Indices: 31853--31966 Score: 110
Period size: 21 Copynumber: 5.6 Consensus size: 21
31843 AATATGTAAA
*
31853 TCGCAATGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAGT
* *
31874 TCGCATTGCGAT-TTACATA-T
1 TCGCATTGCGATAGTCCA-AGT
31894 TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAGT
** *
31915 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATAGTCCAAGT
* *
31936 TCG--TTGCAATAGTCGAAGT
1 TCGCATTGCGATAGTCCAAGT
*
31955 TCGCGTTGCGAT
1 TCGCATTGCGAT
31967 TTATTCCAAA
Statistics
Matches: 74, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
19 14 0.19
20 17 0.23
21 43 0.58
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (21 bp):
TCGCATTGCGATAGTCCAAGT
Found at i:31898 original size:20 final size:20
Alignment explanation
Indices: 31869--31928 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
31859 TGCGATAGTC
31869 CAAGTTCGCATTGCGATTTA
1 CAAGTTCGCATTGCGATTTA
* *
31889 CATA-TTCGCATTGCGATAGTC
1 CA-AGTTCGCATTGCGAT-TTA
31910 CAAGTTCGCATTGCGATTT
1 CAAGTTCGCATTGCGATTT
31929 TCCAAATTCG
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 17 0.50
21 17 0.50
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (20 bp):
CAAGTTCGCATTGCGATTTA
Found at i:32627 original size:6 final size:5
Alignment explanation
Indices: 32591--32623 Score: 57
Period size: 5 Copynumber: 6.4 Consensus size: 5
32581 CGTCCCGTCC
32591 CGGGT CGGGT CGGGT CGGGT CGGGT CGTGGT CG
1 CGGGT CGGGT CGGGT CGGGT CGGGT CG-GGT CG
32624 TGGTAATACG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 22 0.81
6 5 0.19
ACGTcount: A:0.00, C:0.21, G:0.58, T:0.21
Consensus pattern (5 bp):
CGGGT
Found at i:32749 original size:21 final size:21
Alignment explanation
Indices: 32720--32994 Score: 279
Period size: 21 Copynumber: 12.8 Consensus size: 21
32710 ATTTTGGACT
32720 ATCGCAACGAACTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
* *
32741 ATCGTAACGAATTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
* *
32762 ATCGTAACGAATTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
** *
32783 ATCGCAATAAATTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
* *
32804 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAACTTGGAATAA
* *
32825 ATCACAACGAATTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
32846 ATCGCAACGCGAACTTGGAATAA
1 ATCGCAA--CGAACTTGGAATAA
*
32869 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
32890 ATCGCAACGCGAACTTGGAATAA
1 ATCGCAA--CGAACTTGGAATAA
* *
32913 ATCGCAACGAATTTTGAATAA
1 ATCGCAACGAACTTGGAATAA
* *
32934 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAACTTGGAATAA
*
32955 ATCGCAACGAACTTAGAATAA
1 ATCGCAACGAACTTGGAATAA
32976 ATCGCAACGCGAACTTGGA
1 ATCGCAA--CGAACTTGGA
32995 CTATCGCAAT
Statistics
Matches: 214, Mismatches: 26, Indels: 26
0.80 0.10 0.10
Matches are distributed among these distances:
19 19 0.09
21 130 0.61
23 65 0.30
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.22
Consensus pattern (21 bp):
ATCGCAACGAACTTGGAATAA
Found at i:32772 original size:42 final size:43
Alignment explanation
Indices: 32720--32994 Score: 346
Period size: 42 Copynumber: 6.4 Consensus size: 43
32710 ATTTTGGACT
*
32720 ATCGCAA-CGAACTTGGAATAAATCGTAACGAATTTGGAATAA
1 ATCGCAACCGAACTTGGAATAAATCGCAACGAATTTGGAATAA
* * **
32762 ATCGTAA-CGAATTTGGAATAAATCGCAATAAATTTGGAATAA
1 ATCGCAACCGAACTTGGAATAAATCGCAACGAATTTGGAATAA
* * *
32804 ATCGCAACGCGAACTTCGACT--ATCACAACGAATTTGGAATAA
1 ATCGCAAC-CGAACTTGGAATAAATCGCAACGAATTTGGAATAA
32846 ATCGCAACGCGAACTTGGAATAAATCGCAACGAATTTGGAATAA
1 ATCGCAAC-CGAACTTGGAATAAATCGCAACGAATTTGGAATAA
*
32890 ATCGCAACGCGAACTTGGAATAAATCGCAACGAATTTTGAATAA
1 ATCGCAAC-CGAACTTGGAATAAATCGCAACGAATTTGGAATAA
* * * *
32934 ATCGCAACGCGAACTTCGACT--ATCGCAACGAACTTAGAATAA
1 ATCGCAAC-CGAACTTGGAATAAATCGCAACGAATTTGGAATAA
32976 ATCGCAACGCGAACTTGGA
1 ATCGCAAC-CGAACTTGGA
32995 CTATCGCAAT
Statistics
Matches: 208, Mismatches: 21, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
42 117 0.56
44 91 0.44
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.22
Consensus pattern (43 bp):
ATCGCAACCGAACTTGGAATAAATCGCAACGAATTTGGAATAA
Found at i:33010 original size:130 final size:127
Alignment explanation
Indices: 32720--33003 Score: 421
Period size: 130 Copynumber: 2.2 Consensus size: 127
32710 ATTTTGGACT
* * *
32720 ATCGCAA--CGAACTTGGAATAAATCGTAACGAATTTGGAATAAATCGTAACGAATTTGGAATAA
1 ATCGCAACGCGAACTTGGAAT-AATCGCAACGAATTTGGAATAAATCGCAACGAACTTGGAATAA
* * *
32783 ATCGCAATAAATTTGGAATAAATCGCAACGCGAACTTCGACTATCACAACGAATTTGGAATAA
65 ATCGCAACAAATTTGGAATAAATCGCAACGCGAACTTCGACTATCACAACGAACTTAGAATAA
32846 ATCGCAACGCGAACTTGGAATAAATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTGGAAT
1 ATCGCAACGCGAACTTGGAAT-AATCGCAACGAATTTGGAATAAATCGCAA--CGAACTTGGAAT
* * *
32911 AAATCGCAACGAATTTTGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTAGAATAA
63 AAATCGCAACAAATTTGGAATAAATCGCAACGCGAACTTCGACTATCACAACGAACTTAGAATAA
*
32976 ATCGCAACGCGAACTTGGACT-ATCGCAA
1 ATCGCAACGCGAACTTGGAATAATCGCAA
33004 TGCGAATATG
Statistics
Matches: 144, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
126 7 0.05
128 47 0.33
130 90 0.62
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.22
Consensus pattern (127 bp):
ATCGCAACGCGAACTTGGAATAATCGCAACGAATTTGGAATAAATCGCAACGAACTTGGAATAAA
TCGCAACAAATTTGGAATAAATCGCAACGCGAACTTCGACTATCACAACGAACTTAGAATAA
Found at i:40054 original size:19 final size:19
Alignment explanation
Indices: 39996--40081 Score: 57
Period size: 20 Copynumber: 4.3 Consensus size: 19
39986 AAAATAAGGG
39996 GAAAAAAAAGAAAAAATGAAA
1 GAAAAAAAAGAAAAAA--AAA
**
40017 CGACAAAGAAAA-AATGAAAAA
1 -GA-AAA-AAAAGAAAAAAAAA
**
40038 GAAAAAAAAGAAAGAAAATG
1 GAAAAAAAAGAAA-AAAAAA
*
40058 GAAAAAAATGAAAAAAAAA
1 GAAAAAAAAGAAAAAAAAA
*
40077 TAAAA
1 GAAAA
40082 GGGGGTTTAA
Statistics
Matches: 50, Mismatches: 10, Indels: 11
0.70 0.14 0.15
Matches are distributed among these distances:
18 4 0.08
19 13 0.26
20 17 0.34
21 3 0.06
22 2 0.04
23 7 0.14
24 4 0.08
ACGTcount: A:0.78, C:0.02, G:0.14, T:0.06
Consensus pattern (19 bp):
GAAAAAAAAGAAAAAAAAA
Found at i:40075 original size:10 final size:9
Alignment explanation
Indices: 40033--40075 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
40023 AGAAAAAATG
40033 AAAAAGAAA
1 AAAAAGAAA
40042 AAAAAGAAA
1 AAAAAGAAA
*
40051 GAAAATGGAAA
1 -AAAA-AGAAA
*
40062 AAAATGAAA
1 AAAAAGAAA
40071 AAAAA
1 AAAAA
40076 ATAAAAGGGG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
9 17 0.59
10 8 0.28
11 4 0.14
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.05
Consensus pattern (9 bp):
AAAAAGAAA
Found at i:40075 original size:20 final size:20
Alignment explanation
Indices: 40038--40075 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
40028 AAATGAAAAA
*
40038 GAAAAAAAAGAAAGAAAATG
1 GAAAAAAAAGAAAAAAAATG
*
40058 GAAAAAAATGAAAAAAAA
1 GAAAAAAAAGAAAAAAAA
40076 ATAAAAGGGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (20 bp):
GAAAAAAAAGAAAAAAAATG
Found at i:42315 original size:14 final size:14
Alignment explanation
Indices: 42296--42322 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
42286 TTTTTATCTT
42296 TTAAAATTATTTTC
1 TTAAAATTATTTTC
42310 TTAAAATTATTTT
1 TTAAAATTATTTT
42323 AAAATGTACT
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:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (14 bp):
TTAAAATTATTTTC
Found at i:43757 original size:133 final size:134
Alignment explanation
Indices: 43448--43785 Score: 387
Period size: 133 Copynumber: 2.5 Consensus size: 134
43438 GAACACATTT
* * * * *
43448 TTCTTCTTTCAAGATTTGGTATTCCTAAAGAGCAGCGAAGCAAATTAAATTCGATTCAATATTCC
1 TTCTTCTTTC-AGATTTGGTCTTCCTAAAGAGCAGAGAAGCAAATCAAGTTCGATTCAATCTTCC
* * * *
43513 CTGAAGAGCAATAAAGTGGATCAAAATTTTCTCGAGTATGATCTCCTCGAAAGAGTAGTGGAGCA
65 CTGAAGAGCAACAAAGTGGATCAAAATTTCCTCGAGTATGATCTCCTCAAAAGAGTAGTAGAGCA
43578 GATCC
130 GATCC
* * * *
43583 TTCTTCTTTCGGAATTGGTCTTTCTAAAGACCAGAGAAGCAAATCAAGTTCGATTCAATCTTCCC
1 TTCTTCTTTCAGATTTGGTCTTCCTAAAGAGCAGAGAAGCAAATCAAGTTCGATTCAATCTTCCC
* ** *
43648 TGAAGAGCAGCAAAGTGGATCACGA-TTCCAT-GAGTTTGATCTCC-CTAAAAGAGTAGTAGAGC
66 TGAAGAGCAACAAAGTGGATCAAAATTTCC-TCGAGTATGATCTCCTC-AAAAGAGTAGTAGAGC
*
43710 GGATCC
129 AGATCC
* * * * * *
43716 -TCTTTCTTTTAGATTTGGTCTTCCTGAAGAGAAGTGAAGCAAATCAAGTTCGGTTCAACCTTCC
1 TTC-TTCTTTCAGATTTGGTCTTCCTAAAGAGCAGAGAAGCAAATCAAGTTCGATTCAATCTTCC
*
43780 ATGAAG
65 CTGAAG
43786 TGAATCCAAT
Statistics
Matches: 171, Mismatches: 29, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
132 3 0.02
133 90 0.53
134 68 0.40
135 10 0.06
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (134 bp):
TTCTTCTTTCAGATTTGGTCTTCCTAAAGAGCAGAGAAGCAAATCAAGTTCGATTCAATCTTCCC
TGAAGAGCAACAAAGTGGATCAAAATTTCCTCGAGTATGATCTCCTCAAAAGAGTAGTAGAGCAG
ATCC
Found at i:47585 original size:20 final size:20
Alignment explanation
Indices: 47556--47594 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
47546 AGAGCTCATA
*
47556 TAGGATCATATAGATGCATT
1 TAGGAGCATATAGATGCATT
*
47576 TAGGAGCATATAGTTGCAT
1 TAGGAGCATATAGATGCAT
47595 GAGGTGGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (20 bp):
TAGGAGCATATAGATGCATT
Found at i:48467 original size:21 final size:20
Alignment explanation
Indices: 48429--48467 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
48419 TAATGGATGG
*
48429 TTGTTTTTGTATGTTGTTAT
1 TTGTTTTTGTATGATGTTAT
*
48449 TTGTTTTGTTTATGATGTT
1 TTGTTTT-TGTATGATGTT
48468 TAATGCCTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.10, C:0.00, G:0.21, T:0.69
Consensus pattern (20 bp):
TTGTTTTTGTATGATGTTAT
Found at i:53955 original size:12 final size:12
Alignment explanation
Indices: 53938--53979 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
53928 TACACGTTTA
53938 TGAACAGTACCG
1 TGAACAGTACCG
*
53950 TGAACAGTA--A
1 TGAACAGTACCG
*
53960 TGAACAGTGCCG
1 TGAACAGTACCG
53972 TGAACAGT
1 TGAACAGT
53980 GCTACAATGA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
10 8 0.32
12 17 0.68
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.19
Consensus pattern (12 bp):
TGAACAGTACCG
Found at i:53965 original size:22 final size:22
Alignment explanation
Indices: 53937--53979 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
53927 ATACACGTTT
53937 ATGAACAGTACCGTGAACAGTA
1 ATGAACAGTACCGTGAACAGTA
*
53959 ATGAACAGTGCCGTGAACAGT
1 ATGAACAGTACCGTGAACAGT
53980 GCTACAATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.19, G:0.26, T:0.19
Consensus pattern (22 bp):
ATGAACAGTACCGTGAACAGTA
Found at i:54643 original size:31 final size:31
Alignment explanation
Indices: 54608--54747 Score: 208
Period size: 31 Copynumber: 4.5 Consensus size: 31
54598 ATAGATTCTA
* * *
54608 AAGAACCTAGGTAAACAGCCCATATATCCCG
1 AAGAACATAGGTAAACAGTCCATATGTCCCG
*
54639 AAGAACATAGGTAAACAATCCATATGTCCCG
1 AAGAACATAGGTAAACAGTCCATATGTCCCG
* * *
54670 AAGAATATAGGTAAACCGTCCATATGTCTCG
1 AAGAACATAGGTAAACAGTCCATATGTCCCG
*
54701 AAGAACATAGGTAAACAGTCCATATGTCTCG
1 AAGAACATAGGTAAACAGTCCATATGTCCCG
54732 AAGAACATAGGTAAAC
1 AAGAACATAGGTAAAC
54748 CCTCGACTCT
Statistics
Matches: 99, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 99 1.00
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.20
Consensus pattern (31 bp):
AAGAACATAGGTAAACAGTCCATATGTCCCG
Found at i:62627 original size:19 final size:19
Alignment explanation
Indices: 62603--62643 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
62593 AAGGTCTCCA
62603 GGAGCACACAGCGACCTAT
1 GGAGCACACAGCGACCTAT
***
62622 GGAGCACTTGGCGACCTAT
1 GGAGCACACAGCGACCTAT
62641 GGA
1 GGA
62644 AATGCAACAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.32, T:0.15
Consensus pattern (19 bp):
GGAGCACACAGCGACCTAT
Found at i:67434 original size:2 final size:2
Alignment explanation
Indices: 67427--67454 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
67417 CCCTTACCCC
67427 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
67455 GAGAAAAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:70208 original size:182 final size:182
Alignment explanation
Indices: 69901--70574 Score: 1051
Period size: 182 Copynumber: 3.7 Consensus size: 182
69891 TGTCGGTTTA
* * * * * *
69901 TGTCGATACTTTATAAAAATGTATCGATCCATATCAATATAACATGTAAAAATATGACAAAATCG
1 TGTCGATACTTTATAACAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCG
* * * * * *
69966 GTCTCAAAAAGACAAAAGCGGTAAAGTGTTACCGGATATATTAAAAGTGTCGATACTTTAATATA
66 GTCTCAAAAGGACAAAACCGGTATAGAGCTACCGGATATATTGAAAGTGTCGATACTTTAATATA
*
70031 AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTTGTGCCTATAAAG
131 AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTTGCGCCTATAAAG
* * * *
70083 TGTCGATATTTTATAACAATGTATCGATCTACAACGATATAACAGGTAAAAATATGACAAAATCA
1 TGTCGATACTTTATAACAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCG
*
70148 GTCTCAAAAGGACAAAATCGGTATAGAGCTACCGGATATATTGAAAGTGTCGATACTTTAATATA
66 GTCTCAAAAGGACAAAACCGGTATAGAGCTACCGGATATATTGAAAGTGTCGATACTTTAATATA
* *
70213 AGTATCGACATTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
131 AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTTGCGCCTATAAAG
*
70265 TGTTGATACTTTATAACAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCG
1 TGTCGATACTTTATAACAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCG
* *
70330 GTCTCGAAATGACAAAACCGGTATAGAGCTACCGGATATATTGAAAGTGTCGATACTTTAATATA
66 GTCTCAAAAGGACAAAACCGGTATAGAGCTACCGGATATATTGAAAGTGTCGATACTTTAATATA
* * * *
70395 AGTATCGACACTTTGTAAATTTAAAAGATAAACAGTTTTTACGCCTATAAAG
131 AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTTGCGCCTATAAAG
* **
70447 TGTCGATACTTTATAACAATGTATCGATCCACAACGTTATAACATATAAAAATATGACAAAACCG
1 TGTCGATACTTTATAACAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCG
* * *
70512 GTCTCGAAAGGAAAAAACCGGTATAGAGCTACCAGATATATTGAAAGTGTCGATACTTTAATA
66 GTCTCAAAAGGACAAAACCGGTATAGAGCTACCGGATATATTGAAAGTGTCGATACTTTAATA
70575 AGTACGCGTA
Statistics
Matches: 454, Mismatches: 38, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
182 454 1.00
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (182 bp):
TGTCGATACTTTATAACAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCG
GTCTCAAAAGGACAAAACCGGTATAGAGCTACCGGATATATTGAAAGTGTCGATACTTTAATATA
AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTTGCGCCTATAAAG
Found at i:72940 original size:21 final size:21
Alignment explanation
Indices: 72914--72957 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
72904 AAGACAATCA
72914 AGAGTCGAAGAGACACTTGAG
1 AGAGTCGAAGAGACACTTGAG
72935 AGAGTCGAAGAGACACTTGAG
1 AGAGTCGAAGAGACACTTGAG
72956 AG
1 AG
72958 GCAAAAGGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.14, G:0.34, T:0.14
Consensus pattern (21 bp):
AGAGTCGAAGAGACACTTGAG
Found at i:76157 original size:200 final size:196
Alignment explanation
Indices: 75765--76441 Score: 794
Period size: 200 Copynumber: 3.4 Consensus size: 196
75755 ACCTAAATAT
* *
75765 GTGTTGATACATTT-TCTAAAAGTATCGA-CCAAAAAAACATCGAAACCAATAATTATAATGTAA
1 GTGTCGATACATTTAT-TAAAAGTATCGATCC-AAAAAACATCGAAACCGATAATTATAATGTAA
* * * * * * *
75828 TAGGTAAATTAACAATGTAACAGGTATAAATATACCGGTTAATTAGAAAATAGTTCAACATAATG
64 TAGGTAAATTTACAATGTAACCGATATAAATATACCGTTTTATAAGAAAATAGGTC-ACATAATG
** *
75893 TATCGACACTTGTGGAATTTGTGTCGATACTTATATTCCAGAATGAATACCCAAACGAGGTGCAC
128 TATCGACACTTGTTAAATTTGTGTCGATACTT-T-TTCCAGAATGAAT-GCCAAACGAGGTGCAC
75958 GCATAAA
190 GCATAAA
*
75965 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
1 GTGTCGATACATTTATTAAAAGTATCGATCCAAAAAACATCGAAACCGATAATTATAATGTAATA
* * *
76030 TGTAAATTTACAATGTAACCGATATAAATATACCAGTTTTATGAGAAAATAGGTCAGCATAAAGT
66 GGTAAATTTACAATGTAACCGATATAAATATACC-GTTTTATAAGAAAATAGGTCA-CATAATGT
* * * *
76095 ATCGACACTTGTTAAATTTTTGTCGATACATTTTGTCCATAATGAATGTCAAACGGGGTGCACGC
129 ATCGACACTTGTTAAATTTGTGTCGATAC-TTTT-TCCAGAATGAATGCCAAACGAGGTGCACGC
*
76160 ATAGA
192 ATAAA
* * * *
76165 GTGTCGATACATTTATTAAAACTATCGATCCCAAAAACATCGAAA-CGA-AGATTACAATGTGAT
1 GTGTCGATACATTTATTAAAAGTATCGATCCAAAAAACATCGAAACCGATA-ATTATAATGTAAT
* * * *
76228 AGGTAAATTTAGAATGT-ACC-ATGTATAAATATATCGATTTTATAAGAAAATATGTCTAAATAA
65 AGGTAAATTTACAATGTAACCGA--TATAAATATACCG-TTTTATAAGAAAATAGGTC-ACATAA
** * * * * * *
76291 TGTATTAACACTTTTTAAGTTTGTGTCGATATTTTTTTCCAGAATGAATGCCCAACGATGTGCAT
126 TGTATCGACACTTGTTAAATTTGTGTCGATA-CTTTTTCCAGAATGAATGCCAAACGAGGTGCAC
76356 GCATAAA
190 GCATAAA
* *
76363 GTGTCGATACATTTA--AAATGTATCGATCCAAAAAACATCAAAACCGATAATTATAATGTAATA
1 GTGTCGATACATTTATTAAAAGTATCGATCCAAAAAACATCGAAACCGATAATTATAATGTAATA
*
76426 GGTAAATTTGCAATGT
66 GGTAAATTTACAATGT
76442 TACTGGTTTA
Statistics
Matches: 412, Mismatches: 51, Indels: 31
0.83 0.10 0.06
Matches are distributed among these distances:
196 24 0.06
197 30 0.07
198 49 0.12
199 90 0.22
200 153 0.37
201 64 0.16
202 2 0.00
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (196 bp):
GTGTCGATACATTTATTAAAAGTATCGATCCAAAAAACATCGAAACCGATAATTATAATGTAATA
GGTAAATTTACAATGTAACCGATATAAATATACCGTTTTATAAGAAAATAGGTCACATAATGTAT
CGACACTTGTTAAATTTGTGTCGATACTTTTTCCAGAATGAATGCCAAACGAGGTGCACGCATAA
A
Found at i:76563 original size:64 final size:63
Alignment explanation
Indices: 76489--76611 Score: 192
Period size: 64 Copynumber: 1.9 Consensus size: 63
76479 ACTTATTACA
* * *
76489 TTATAAAAGCGCTACCTAATATGTTATTGTACTTGATAATATTTCCGGTTAAATGCATATTTTT
1 TTATAAAAGCGATACCTAATATATTATTATACTTGATAATATTTCCGGTTAAATG-ATATTTTT
* *
76553 TTATATAAGCGATACCTAATATATTATTATACTTGATAATATTTCTGGTTAAATGATAT
1 TTATAAAAGCGATACCTAATATATTATTATACTTGATAATATTTCCGGTTAAATGATAT
76612 AACATAACCA
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
63 4 0.07
64 50 0.93
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.44
Consensus pattern (63 bp):
TTATAAAAGCGATACCTAATATATTATTATACTTGATAATATTTCCGGTTAAATGATATTTTT
Done.