Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006029.1 Hibiscus syriacus cultivar Beakdansim tig00014233_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: 116134
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Found at i:4840 original size:30 final size:29
Alignment explanation
Indices: 4793--4860 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 29
4783 TTAAATGTTA
*
4793 TAATAAAATATTTATTATGAT-AATTAAAT
1 TAATAAAATACTTATTAT-ATAAATTAAAT
* *
4822 TAATAAATATACTTATTATATAAATTTATT
1 TAATAAA-ATACTTATTATATAAATTAAAT
4852 TAATAAAAT
1 TAATAAAAT
4861 TGTTTAAATG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 11 0.32
30 23 0.68
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (29 bp):
TAATAAAATACTTATTATATAAATTAAAT
Found at i:4965 original size:23 final size:24
Alignment explanation
Indices: 4923--4976 Score: 92
Period size: 23 Copynumber: 2.3 Consensus size: 24
4913 CAATGATTAA
4923 ATGTAAATTAATATAATTTAATTT
1 ATGTAAATTAATATAATTTAATTT
*
4947 ATGTAAATT-ATATAGTTTAATTT
1 ATGTAAATTAATATAATTTAATTT
4970 ATGTAAA
1 ATGTAAA
4977 GAAAAAATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 20 0.69
24 9 0.31
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (24 bp):
ATGTAAATTAATATAATTTAATTT
Found at i:6876 original size:2 final size:2
Alignment explanation
Indices: 6871--6997 Score: 54
Period size: 2 Copynumber: 64.5 Consensus size: 2
6861 TTTATTACTT
* * *
6871 TA TA TA TA TA TA TA TA GA T- TA GA TA TA T- TA GT- TA TA CA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
* * * *
6911 CA TA TA TA TA CTA TA T- TA -A TA TA AA T- TA TA -A TT TA TA AA
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
6950 CTA TA TA CTT TA TA TA GTT TA TA CA TA TA TA GT- 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
6993 TA TA T
1 TA TA T
6998 TAATATAAAT
Statistics
Matches: 91, Mismatches: 20, Indels: 28
0.65 0.14 0.20
Matches are distributed among these distances:
1 8 0.09
2 76 0.84
3 7 0.08
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (2 bp):
TA
Found at i:7007 original size:71 final size:72
Alignment explanation
Indices: 6912--7060 Score: 248
Period size: 71 Copynumber: 2.1 Consensus size: 72
6902 TTATACATAC
6912 ATATATATACTATATTAATATAAATTATAATTTATAAACTATATACTTTATATAGTTTATACATA
1 ATATATATACTATATTAATATAAATTATAATTTATAAACTATATACTTTATATAGTTTATACATA
*
6977 TATAGTT
66 TATAATT
* * *
6984 ATATATATA-TATATTAATATAAATTGTAGTTTATAAACTATATACTTTTTATAGTTTATACATA
1 ATATATATACTATATTAATATAAATTATAATTTATAAACTATATACTTTATATAGTTTATACATA
7048 TATAATT
66 TATAATT
7055 -TATATA
1 ATATATA
7061 CATAGTTTAT
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
70 6 0.08
71 58 0.79
72 9 0.12
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.48
Consensus pattern (72 bp):
ATATATATACTATATTAATATAAATTATAATTTATAAACTATATACTTTATATAGTTTATACATA
TATAATT
Found at i:7083 original size:44 final size:46
Alignment explanation
Indices: 7033--7165 Score: 123
Period size: 44 Copynumber: 2.8 Consensus size: 46
7023 ATATACTTTT
*
7033 TATAGTTTATACATATATAATTTATATACATAGTTTATATAT-A-TA
1 TATAGTTTATA-ATATATAATTTATATATATAGTTTATATATAATTA
* * *
7078 -ATAGTTCATATAA-ACATAGTTTATATATATAGCTTATA-ATAATTA
1 TATAGTT--TATAATATATAATTTATATATATAGTTTATATATAATTA
*
7123 TATAGTTTATAATATAAATATAGTTTACATATATAGTTTATAT
1 TATAGTTTATAATAT--ATA-A-TTTATATATATAGTTTATAT
7166 TTAAACTTAC
Statistics
Matches: 69, Mismatches: 8, Indels: 17
0.73 0.09 0.18
Matches are distributed among these distances:
43 2 0.03
44 33 0.48
45 4 0.06
46 10 0.14
47 3 0.04
49 17 0.25
ACGTcount: A:0.43, C:0.05, G:0.06, T:0.47
Consensus pattern (46 bp):
TATAGTTTATAATATATAATTTATATATATAGTTTATATATAATTA
Found at i:7090 original size:71 final size:71
Alignment explanation
Indices: 6913--7092 Score: 233
Period size: 71 Copynumber: 2.5 Consensus size: 71
6903 TATACATACA
* *
6913 TATATATAC-TATATTAATATAAATTATAATTTATAAACTATATACTTTATATAGTTTATACATA
1 TATATATACATATATTAATATAAATAATAGTTTATAAACTATATACTTTATATAGTTTATACATA
*
6977 TATAGT
66 TATAAT
* ** *
6983 TATATATATATATATTAATATAAATTGTAGTTTATAAACTATATACTTTTTATAGTTTATACATA
1 TATATATACATATATTAATATAAATAATAGTTTATAAACTATATACTTTATATAGTTTATACATA
7048 TATAAT
66 TATAAT
*
7054 T-TATATACATAGT-TT-ATATATATAATAGTTCATATAAAC
1 TATATATACATA-TATTAATATAAATAATAGTT--TATAAAC
7093 ATAGTTTATA
Statistics
Matches: 97, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
69 12 0.12
70 19 0.20
71 66 0.68
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (71 bp):
TATATATACATATATTAATATAAATAATAGTTTATAAACTATATACTTTATATAGTTTATACATA
TATAAT
Found at i:7098 original size:31 final size:29
Alignment explanation
Indices: 7034--7108 Score: 98
Period size: 31 Copynumber: 2.6 Consensus size: 29
7024 TATACTTTTT
* *
7034 ATAGTTTATACATAT-ATAATTTATATAC
1 ATAGTTTATATATATAATAATTTATAAAC
*
7062 ATAGTTTATATATATAATAGTTCATATAAAC
1 ATAGTTTATATATATAATAATT--TATAAAC
7093 ATAGTTTATATATATA
1 ATAGTTTATATATATA
7109 GCTTATAATA
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
28 14 0.34
29 5 0.12
31 22 0.54
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.45
Consensus pattern (29 bp):
ATAGTTTATATATATAATAATTTATAAAC
Found at i:7143 original size:18 final size:18
Alignment explanation
Indices: 7099--7149 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
7089 AAACATAGTT
*
7099 TATATATATAGCTTATAA
1 TATATATATAGTTTATAA
7117 TA-ATTATATAGTTTATAA
1 TATA-TATATAGTTTATAA
*
7135 TATAAATATAGTTTA
1 TATATATATAGTTTA
7150 CATATATAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 1 0.03
18 27 0.93
19 1 0.03
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (18 bp):
TATATATATAGTTTATAA
Found at i:7431 original size:2 final size:2
Alignment explanation
Indices: 7424--7481 Score: 55
Period size: 2 Copynumber: 29.0 Consensus size: 2
7414 CTACATAAAC
* * * * *
7424 TA TA TA TA TA TA TT TG TC TT TA TA TA CTT 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
7467 TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA
7482 AGTGTTTTAT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
1 1 0.02
2 45 0.96
3 1 0.02
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.55
Consensus pattern (2 bp):
TA
Found at i:9391 original size:18 final size:18
Alignment explanation
Indices: 9368--9404 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
9358 ATCAATAAAG
9368 GAGATATGATAAAATTAT
1 GAGATATGATAAAATTAT
9386 GAGATATGATAAAATTAT
1 GAGATATGATAAAATTAT
9404 G
1 G
9405 GGTAAAGTAC
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:0.49, C:0.00, G:0.19, T:0.32
Consensus pattern (18 bp):
GAGATATGATAAAATTAT
Found at i:18951 original size:22 final size:20
Alignment explanation
Indices: 18919--18969 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
18909 GATTCAACCA
*
18919 GTATCGGTACCCAAGAAAAGGG
1 GTATCGATA-CCAAGAAAA-GG
* *
18941 GTATCGATACCATGGAAAGG
1 GTATCGATACCAAGAAAAGG
18961 GTATCGATA
1 GTATCGATA
18970 TCAGTAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 11 0.42
21 7 0.27
22 8 0.31
ACGTcount: A:0.35, C:0.16, G:0.29, T:0.20
Consensus pattern (20 bp):
GTATCGATACCAAGAAAAGG
Found at i:19112 original size:95 final size:93
Alignment explanation
Indices: 18937--19143 Score: 220
Period size: 95 Copynumber: 2.2 Consensus size: 93
18927 ACCCAAGAAA
* * *
18937 AGGGGTATCGATACCATGGAAAGGGTATCGATATCAGTAAATATCGAATATAATTTGGGTATCGA
1 AGGGGTATCGATACCATGGAAAGGGTATCGATATCAGGAAATATCAAAGATAATTTGGGTATCGA
19002 TACCTAGAGGAGGTATCTG-TACCATAGCAT
66 TACCTAGAGGAGGTATC-GATACCATA--AT
** * ** * * *
19032 AGGGGTATCGATACCATGGTGAGGGTATCGATATTAGGCCATATCAAAGCTAATTTTGGTATTGA
1 AGGGGTATCGATACCATGGAAAGGGTATCGATATCAGGAAATATCAAAGATAATTTGGGTATCGA
* * *
19097 TACATTA-AGGGGGTATCGATACCCTAAT
66 TAC-CTAGAGGAGGTATCGATACCATAAT
19125 AGGGTAGTATCGATACCAT
1 AGGG--GTATCGATACCAT
19144 AAGCAGGGGT
Statistics
Matches: 94, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
93 6 0.06
94 1 0.01
95 85 0.90
96 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.29
Consensus pattern (93 bp):
AGGGGTATCGATACCATGGAAAGGGTATCGATATCAGGAAATATCAAAGATAATTTGGGTATCGA
TACCTAGAGGAGGTATCGATACCATAAT
Found at i:19137 original size:22 final size:21
Alignment explanation
Indices: 19106--19166 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 21
19096 ATACATTAAG
* *
19106 GGGGTATCGATACCCTAA-TA
1 GGGGTATCGATACCATAAGCA
19126 GGGTAGTATCGATACCATAAGCA
1 GGG--GTATCGATACCATAAGCA
19149 GGGGTATCGATACC-TAAG
1 GGGGTATCGATACCATAAG
19167 GGTCAGAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
20 7 0.19
21 11 0.31
22 14 0.39
23 4 0.11
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (21 bp):
GGGGTATCGATACCATAAGCA
Found at i:19157 original size:21 final size:20
Alignment explanation
Indices: 19106--19166 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 20
19096 ATACATTAAG
*
19106 GGGGTATCGATACCCTAA-TA
1 GGGGTATCGATA-CCTAAGCA
19126 GGGTAGTATCGATACCATAAGCA
1 GGG--GTATCGATACC-TAAGCA
19149 GGGGTATCGATACCTAAG
1 GGGGTATCGATACCTAAG
19167 GGTCAGAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
20 7 0.19
21 13 0.36
22 12 0.33
23 4 0.11
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (20 bp):
GGGGTATCGATACCTAAGCA
Found at i:19569 original size:57 final size:57
Alignment explanation
Indices: 19507--20104 Score: 991
Period size: 57 Copynumber: 10.5 Consensus size: 57
19497 GTGCAAAATA
* *
19507 TAAGAAATCATATTAAGTGTATGAATTTTAGATAGGGCGTTTCGTACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
* *
19564 TAAGAAATCATACTAAGTGTATGAATTTCAGATAAGGCATTTCGTACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
* *
19621 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTATGCTAAAATAT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
19678 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTATC-CTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTA-CGCTAAAATGT
* * *
19735 TAAGAAATCATACTAAGTGTATGAATTTGAGATAGGGCATTTCATACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
* * *
19792 TAAGAAATCATACTAAGTGTATGGATTTCAGACAGGGCGTTTCGTACGCTAAAATAT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
* * *
19849 TAAGAAATCATACTCAGTGTATGAATTTCAGGTAGGGCATTTCGTACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
*
19906 TAAGAAATCATACTAAGTGTATAAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
19963 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
* * *
20020 TAAGAAATCATACTAAGTGTATTAATTTCAGATAGGGCGTTTCTTATGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
* *
20077 TAATAAATCATACTAAGTGTAGGAATTT
1 TAAGAAATCATACTAAGTGTATGAATTT
20105 TAATTTATTG
Statistics
Matches: 503, Mismatches: 36, Indels: 4
0.93 0.07 0.01
Matches are distributed among these distances:
56 1 0.00
57 502 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (57 bp):
TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
Found at i:23946 original size:21 final size:21
Alignment explanation
Indices: 23920--23971 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
23910 GTAGGGGTAT
*
23920 CGATACCCTATGGAATAGTAC
1 CGATACCCTATAGAATAGTAC
23941 CGATACCCTATAGAATAGTAC
1 CGATACCCTATAGAATAGTAC
23962 CGATACCCTA
1 CGATACCCTA
23972 GGCAAGAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (21 bp):
CGATACCCTATAGAATAGTAC
Found at i:24648 original size:57 final size:57
Alignment explanation
Indices: 24585--25067 Score: 806
Period size: 57 Copynumber: 8.5 Consensus size: 57
24575 GTGTCAAATA
* * * *
24585 TAAGAAATCATACTAAGTGCATGGATTTCATATAGGGCGTTTCATACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
*
24642 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCATACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
*
24699 TAAGAAATCATACTAAGTGTATGAATTTCAGATA-GGCATTTCGTACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
* *
24755 TAAGAAATCATACTAAGTGTATGAATTTTAGATAGGGCGTTTCGTATGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
* * *
24812 TAAGAAATCGTACTAAGTGTATGAATTTCATATAGGGCGTTTTGTACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
*
24869 TAAGAAATCATACTAAGTGTATAAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
* *
24926 TAAGAAATCATACTAAGTGTATGAATTTCAGATAAGGCGTTTCATACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
* *
24983 TAAGAAATCATACTAAGTGTATGAATTTCATATAGGGCCTTTCGTACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
*
25040 TAAGAAATCATACTAAGTGAATGAATTT
1 TAAGAAATCATACTAAGTGTATGAATTT
25068 TGGTATTTGA
Statistics
Matches: 400, Mismatches: 25, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
56 53 0.13
57 347 0.87
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.33
Consensus pattern (57 bp):
TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
Found at i:32049 original size:20 final size:22
Alignment explanation
Indices: 32024--32063 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
32014 AGTCGTATAT
32024 AGCCG-TTGGGGATG-TTTTGG
1 AGCCGTTTGGGGATGATTTTGG
32044 AGCCGTTTGGGGATGATTTT
1 AGCCGTTTGGGGATGATTTT
32064 TCTGTAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.12, C:0.10, G:0.40, T:0.38
Consensus pattern (22 bp):
AGCCGTTTGGGGATGATTTTGG
Found at i:32528 original size:21 final size:20
Alignment explanation
Indices: 32497--32559 Score: 87
Period size: 19 Copynumber: 3.2 Consensus size: 20
32487 ATGTTTAATG
32497 AAAAAGG-TACCAATTGTTT
1 AAAAAGGATACCAATTGTTT
32516 ACAAAAGGATACCAATTG-TT
1 A-AAAAGGATACCAATTGTTT
*
32536 AAAAA-AATACCAATTGTTT
1 AAAAAGGATACCAATTGTTT
32555 AAAAA
1 AAAAA
32560 TATATGAAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
18 10 0.25
19 12 0.30
20 9 0.22
21 9 0.22
ACGTcount: A:0.51, C:0.11, G:0.11, T:0.27
Consensus pattern (20 bp):
AAAAAGGATACCAATTGTTT
Found at i:36951 original size:19 final size:20
Alignment explanation
Indices: 36910--36959 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
36900 GATAAAAATG
* *
36910 GTATCGATACCCAGGGGTCA
1 GTATCGATACTCAGGGGTAA
*
36930 GTATCAATACTCA-GGGTAA
1 GTATCGATACTCAGGGGTAA
36949 GTATCGATACT
1 GTATCGATACT
36960 GAAGGCTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 15 0.58
20 11 0.42
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (20 bp):
GTATCGATACTCAGGGGTAA
Found at i:39184 original size:14 final size:13
Alignment explanation
Indices: 39167--39228 Score: 79
Period size: 13 Copynumber: 4.6 Consensus size: 13
39157 AGTCAACTCG
39167 TTGACTTTGACCCA
1 TTGACTTTG-CCCA
* *
39181 TTGACTTTGACCG
1 TTGACTTTGCCCA
39194 TTGACTTTTGCCCA
1 TTGAC-TTTGCCCA
*
39208 TTGACTTTGCCCG
1 TTGACTTTGCCCA
39221 TTGACTTT
1 TTGACTTT
39229 TACCTAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
13 22 0.52
14 20 0.48
ACGTcount: A:0.15, C:0.26, G:0.18, T:0.42
Consensus pattern (13 bp):
TTGACTTTGCCCA
Found at i:39207 original size:27 final size:28
Alignment explanation
Indices: 39165--39229 Score: 107
Period size: 27 Copynumber: 2.4 Consensus size: 28
39155 CGAGTCAACT
39165 CGTTGAC-TTTGACCCATTGACTTTGAC
1 CGTTGACTTTTGACCCATTGACTTTGAC
*
39192 CGTTGACTTTTG-CCCATTGACTTTGCC
1 CGTTGACTTTTGACCCATTGACTTTGAC
39219 CGTTGACTTTT
1 CGTTGACTTTT
39230 ACCTAAAATG
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 32 0.89
28 4 0.11
ACGTcount: A:0.14, C:0.26, G:0.18, T:0.42
Consensus pattern (28 bp):
CGTTGACTTTTGACCCATTGACTTTGAC
Found at i:47169 original size:33 final size:33
Alignment explanation
Indices: 47127--47221 Score: 165
Period size: 32 Copynumber: 2.9 Consensus size: 33
47117 CTTAGTACAG
*
47127 ATGGTGGACACAACCTTATGTGTCATACGGATT
1 ATGGTGGACACGACCTTATGTGTCATACGGATT
*
47160 ATGGTGGACACGACCTTATGTGTC-TACGAATT
1 ATGGTGGACACGACCTTATGTGTCATACGGATT
47192 ATGGTGGACACGACCTTATGTGTCATACGG
1 ATGGTGGACACGACCTTATGTGTCATACGG
47222 GATAGCAGTA
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
32 31 0.53
33 27 0.47
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.29
Consensus pattern (33 bp):
ATGGTGGACACGACCTTATGTGTCATACGGATT
Found at i:47204 original size:16 final size:17
Alignment explanation
Indices: 47157--47211 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 17
47147 TGTCATACGG
47157 ATTATGGTGGACACGAC
1 ATTATGGTGGACACGAC
* *
47174 CTTAT-GT-GTCTACGA-
1 ATTATGGTGGAC-ACGAC
47189 ATTATGGTGGACACGAC
1 ATTATGGTGGACACGAC
*
47206 CTTATG
1 ATTATG
47212 TGTCATACGG
Statistics
Matches: 29, Mismatches: 5, Indels: 8
0.69 0.12 0.19
Matches are distributed among these distances:
15 6 0.21
16 12 0.41
17 11 0.38
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (17 bp):
ATTATGGTGGACACGAC
Found at i:59313 original size:98 final size:98
Alignment explanation
Indices: 59144--59348 Score: 376
Period size: 98 Copynumber: 2.1 Consensus size: 98
59134 TGCGTCGGGG
59144 CTACTTTTTTCAGGGTATGAATATGATGCTTACTTCATTATCTGGAGATGCTGTTTACTTCTTGT
1 CTACTTTTTTCAGGGTATGAATATGATGCTTACTTCATTATCTGGAGATGCTGTTTACTTCTTGT
59209 TTATGATGATGGAAGATCATTGAATGCTGCTTA
66 TTATGATGATGGAAGATCATTGAATGCTGCTTA
59242 CTACTTTTTTCAGGGTATGAATATGATGCTTACTTCATTATCTGGAGATGCTGTTTACTTCTTGT
1 CTACTTTTTTCAGGGTATGAATATGATGCTTACTTCATTATCTGGAGATGCTGTTTACTTCTTGT
* * *
59307 TTATGATGATGGAATATTATTGAATGCTGTTTA
66 TTATGATGATGGAAGATCATTGAATGCTGCTTA
59340 CTA-TTTTTT
1 CTACTTTTTT
59349 GTTCTTATAG
Statistics
Matches: 104, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
97 6 0.06
98 98 0.94
ACGTcount: A:0.23, C:0.12, G:0.19, T:0.46
Consensus pattern (98 bp):
CTACTTTTTTCAGGGTATGAATATGATGCTTACTTCATTATCTGGAGATGCTGTTTACTTCTTGT
TTATGATGATGGAAGATCATTGAATGCTGCTTA
Found at i:60716 original size:2 final size:2
Alignment explanation
Indices: 60709--60742 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
60699 GCTAATTAAC
*
60709 AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
60743 TCAACAGGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:61038 original size:20 final size:20
Alignment explanation
Indices: 61000--61039 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
60990 AATATAAAAT
* *
61000 ATATAGTTTTTGGAGATATA
1 ATATAGTTTTTGAAAATATA
61020 ATATAGTTTTTGAAAATATA
1 ATATAGTTTTTGAAAATATA
61040 TTTTTGAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.45
Consensus pattern (20 bp):
ATATAGTTTTTGAAAATATA
Found at i:61045 original size:14 final size:14
Alignment explanation
Indices: 61019--61054 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
61009 TTGGAGATAT
61019 AATATAGTTTTTGAA
1 AATATA-TTTTTGAA
61034 AATATATTTTTGAA
1 AATATATTTTTGAA
*
61048 AACATAT
1 AATATAT
61055 ATATATAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 14 0.70
15 6 0.30
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.44
Consensus pattern (14 bp):
AATATATTTTTGAA
Found at i:61057 original size:38 final size:37
Alignment explanation
Indices: 61015--61268 Score: 253
Period size: 38 Copynumber: 6.7 Consensus size: 37
61005 GTTTTTGGAG
*
61015 ATATAATATAGTTTTTGAAAATATATTTTTGAAAACAT
1 ATATAATATAGTTTTT-AAAAAATATTTTTGAAAACAT
* *
61053 ATAT-ATATAGTTCTAAAAAAATAGTTTTTGAAAACAT
1 ATATAATATAGTTTTTAAAAAATA-TTTTTGAAAACAT
* *
61090 ATATAATATAGTTTTTGAAAACATAATTTTGAAAACAT
1 ATATAATATAGTTTTT-AAAAAATATTTTTGAAAACAT
* * ***
61128 ATATTATATAGTTTTTTTAAAAACGGTTTTGAAAACAT
1 ATATAATATAG-TTTTTAAAAAATATTTTTGAAAACAT
* *
61166 ATATAATATAGTTTTTGAAAAATGTTATTTTGAAAACAT
1 ATATAATATAGTTTTTAAAAAAT-AT-TTTTGAAAACAT
* * *
61205 ATAT-ATATAG-TTTAAAAAAATGGTTTTTGAAAACGT
1 ATATAATATAGTTTTTAAAAAAT-ATTTTTGAAAACAT
* *
61241 ATATATATATAATCTTTAAAAATATATT
1 ATATA-ATATAGTTTTTAAAAA-ATATT
61269 ATATTATTTT
Statistics
Matches: 180, Mismatches: 26, Indels: 19
0.80 0.12 0.08
Matches are distributed among these distances:
36 22 0.12
37 47 0.26
38 72 0.40
39 37 0.21
40 2 0.01
ACGTcount: A:0.45, C:0.04, G:0.09, T:0.42
Consensus pattern (37 bp):
ATATAATATAGTTTTTAAAAAATATTTTTGAAAACAT
Found at i:61121 original size:14 final size:14
Alignment explanation
Indices: 61102--61128 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
61092 ATAATATAGT
61102 TTTTGAAAACATAA
1 TTTTGAAAACATAA
61116 TTTTGAAAACATA
1 TTTTGAAAACATA
61129 TATTATATAG
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:0.48, C:0.07, G:0.07, T:0.37
Consensus pattern (14 bp):
TTTTGAAAACATAA
Found at i:61166 original size:76 final size:73
Alignment explanation
Indices: 61015--61264 Score: 306
Period size: 75 Copynumber: 3.3 Consensus size: 73
61005 GTTTTTGGAG
* * *
61015 ATATAATATAGTTTTTGAAAATATATTTTTGAAAACATATATATATAGTTCTAAAAAAATAGTTT
1 ATATAATATAGTTTTTGAAAA-ATAATTTTGAAAACATATATATATAGTTTTAAAAAAA-AGGTT
61080 TTGAAAACAT
64 TTGAAAACAT
** *
61090 ATATAATATAGTTTTTGAAAACATAATTTTGAAAACATATATTATATAGTTTTTTTAAAAACGGT
1 ATATAATATAGTTTTTGAAAA-ATAATTTTGAAAACATATA-TATATAG-TTTTAAAAAAAAGGT
61155 TTTGAAAACAT
63 TTTGAAAACAT
* *
61166 ATATAATATAGTTTTTGAAAAATGTTATTTTGAAAACATATATATATAG-TTTAAAAAAATGGTT
1 ATATAATATAGTTTTTGAAAAA--TAATTTTGAAAACATATATATATAGTTTTAAAAAAAAGG-T
*
61230 TTTGAAAACGT
63 TTTGAAAACAT
* *
61241 ATATATATATAATCTTT-AAAAATA
1 ATATA-ATATAGTTTTTGAAAAATA
61265 TATTATATTA
Statistics
Matches: 154, Mismatches: 15, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
73 1 0.01
74 10 0.06
75 61 0.40
76 57 0.37
77 25 0.16
ACGTcount: A:0.46, C:0.04, G:0.09, T:0.42
Consensus pattern (73 bp):
ATATAATATAGTTTTTGAAAAATAATTTTGAAAACATATATATATAGTTTTAAAAAAAAGGTTTT
GAAAACAT
Found at i:61326 original size:5 final size:5
Alignment explanation
Indices: 61316--61375 Score: 57
Period size: 5 Copynumber: 10.8 Consensus size: 5
61306 TTAATACATA
*
61316 TATTT TATTTT CTATTTT TATCTT TCTTTT TTATTT TATTT TATTT TATTT
1 TATTT TA-TTT -TA-TTT TAT-TT TAT-TT T-ATTT TATTT TATTT TATTT
61367 TATTT TATT
1 TATTT TATT
61376 ATTTTCAAGT
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
5 26 0.54
6 15 0.31
7 7 0.15
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (5 bp):
TATTT
Found at i:61341 original size:14 final size:12
Alignment explanation
Indices: 61318--61381 Score: 56
Period size: 13 Copynumber: 4.8 Consensus size: 12
61308 AATACATATA
61318 TTTTATTTTCTAT
1 TTTTATTTTCT-T
61331 TTTTATCTTTCTT
1 TTTTAT-TTTCTT
*
61344 TTTTATTTTATTTT
1 TTTTA-TTT-TCTT
*
61358 ATTTTATTTTATT
1 -TTTTATTTTCTT
61371 TTATTATTTTC
1 TT-TTATTTTC
61382 AAGTCCAATA
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
12 2 0.05
13 24 0.56
14 12 0.28
15 5 0.12
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTATTTTCTT
Found at i:61359 original size:10 final size:10
Alignment explanation
Indices: 61344--61375 Score: 64
Period size: 10 Copynumber: 3.2 Consensus size: 10
61334 TATCTTTCTT
61344 TTTTATTTTA
1 TTTTATTTTA
61354 TTTTATTTTA
1 TTTTATTTTA
61364 TTTTATTTTA
1 TTTTATTTTA
61374 TT
1 TT
61376 ATTTTCAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTATTTTA
Found at i:61364 original size:15 final size:15
Alignment explanation
Indices: 61344--61375 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
61334 TATCTTTCTT
61344 TTTTATTTTATTTTA
1 TTTTATTTTATTTTA
61359 TTTTATTTTATTTTA
1 TTTTATTTTATTTTA
61374 TT
1 TT
61376 ATTTTCAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTTATTTTATTTTA
Found at i:68954 original size:23 final size:23
Alignment explanation
Indices: 68905--68955 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
68895 TACCATTTCG
* * * *
68905 GTGCATTTCTACGTGGCACTACG
1 GTGCAATTCTACATGGAACTACA
*
68928 GTGCAATTCTACATGGAACTTCA
1 GTGCAATTCTACATGGAACTACA
68951 GTGCA
1 GTGCA
68956 TTTATAGGAG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.29
Consensus pattern (23 bp):
GTGCAATTCTACATGGAACTACA
Found at i:86818 original size:23 final size:23
Alignment explanation
Indices: 86753--86818 Score: 69
Period size: 23 Copynumber: 2.9 Consensus size: 23
86743 CCTTATATAG
86753 CACTTCGGTGCATTTCTACGCGA
1 CACTTCGGTGCATTTCTACGCGA
* * * * *
86776 CACTACGATGCAATTCTACGTGG
1 CACTTCGGTGCATTTCTACGCGA
* *
86799 TACTTCGGTGCATTTATACG
1 CACTTCGGTGCATTTCTACG
86819 AGCTGTGGTG
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (23 bp):
CACTTCGGTGCATTTCTACGCGA
Found at i:89788 original size:64 final size:63
Alignment explanation
Indices: 89710--89845 Score: 175
Period size: 64 Copynumber: 2.1 Consensus size: 63
89700 CAAAGTGTAC
* * * * **
89710 CGATGCACTCTTTAAAGA-AGAAACATTGAATGGCTTGAGTGTACCGATGCAAAGTTAGTGCAT
1 CGATGCACCCTTTAAA-ATAAAAACATCGAATGCCAAGAGTGTACCGATGCAAAGTTAGTGCAT
* *
89773 CGATGCACCCATTTAAAATAAAAACATCGAATGCCAAGAGTGTACCGATGCACAGTTAGTTCAT
1 CGATGCACCC-TTTAAAATAAAAACATCGAATGCCAAGAGTGTACCGATGCAAAGTTAGTGCAT
89837 CGATGCACC
1 CGATGCACC
89846 TCCTTGAAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
63 10 0.16
64 53 0.84
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.24
Consensus pattern (63 bp):
CGATGCACCCTTTAAAATAAAAACATCGAATGCCAAGAGTGTACCGATGCAAAGTTAGTGCAT
Found at i:91097 original size:23 final size:23
Alignment explanation
Indices: 91071--91129 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
91061 TAGCACTTTT
91071 GTGCATTTCTACGCGGCACTACG
1 GTGCATTTCTACGCGGCACTACG
* * *
91094 GTGCAATTCTACGTGGCACTTCG
1 GTGCATTTCTACGCGGCACTACG
*
91117 GTGCATTTATACG
1 GTGCATTTCTACG
91130 AGTTATGGTG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.19, C:0.25, G:0.25, T:0.31
Consensus pattern (23 bp):
GTGCATTTCTACGCGGCACTACG
Found at i:101059 original size:10 final size:11
Alignment explanation
Indices: 101041--101076 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
101031 TTTTTTACGT
101041 TATATATATGA
1 TATATATATGA
101052 TA-ATATAT-A
1 TATATATATGA
101061 TATATATATG-
1 TATATATATGA
101071 TATATA
1 TATATA
101077 ATAATAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
9 3 0.13
10 18 0.78
11 2 0.09
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (11 bp):
TATATATATGA
Found at i:101059 original size:12 final size:11
Alignment explanation
Indices: 101042--101105 Score: 51
Period size: 12 Copynumber: 5.6 Consensus size: 11
101032 TTTTTACGTT
101042 ATATATATGATA
1 ATATATAT-ATA
101054 ATATATATATA
1 ATATATATATA
*
101065 TATATGTATATA
1 -ATATATATATA
*
101077 ATA-ATAATTTCA
1 ATATAT-ATAT-A
*
101089 A-AAATATATA
1 ATATATATATA
101099 ATATATA
1 ATATATA
101106 GTTTTTGGAG
Statistics
Matches: 42, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
10 3 0.07
11 17 0.40
12 22 0.52
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (11 bp):
ATATATATATA
Found at i:101060 original size:14 final size:13
Alignment explanation
Indices: 101041--101082 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
101031 TTTTTTACGT
101041 TATATATATGATAA
1 TATATATAT-ATAA
101055 TATATATATAT-A
1 TATATATATATAA
*
101067 TATGTATATAATAA
1 TATATATAT-ATAA
101081 TA
1 TA
101083 ATTTCAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 9 0.36
13 4 0.16
14 12 0.48
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (13 bp):
TATATATATATAA
Found at i:101119 original size:22 final size:23
Alignment explanation
Indices: 101094--101152 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 23
101084 TTTCAAAAAT
* *
101094 ATATAATATATAGTTTTTG-GAG
1 ATATAATATATAGTTTTTGAAAC
101116 ATAT-A-ATATAGTTTTTGAAAAC
1 ATATAATATATAGTTTTTG-AAAC
101138 ATATAATATATAGTT
1 ATATAATATATAGTT
101153 AAAAATGGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
20 12 0.39
21 1 0.03
22 9 0.29
23 1 0.03
24 8 0.26
ACGTcount: A:0.42, C:0.02, G:0.12, T:0.44
Consensus pattern (23 bp):
ATATAATATATAGTTTTTGAAAC
Found at i:101208 original size:24 final size:23
Alignment explanation
Indices: 101180--101232 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
101170 ACATACATAA
101180 TATATATAATCTTTGAAAATATAT
1 TATATATAATCTTTG-AAATATAT
** *
101204 TATAT-TGTTTTTTGAAATATAT
1 TATATATAATCTTTGAAATATAT
101226 TATATAT
1 TATATAT
101233 TTATATAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 13 0.52
23 7 0.28
24 5 0.20
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.53
Consensus pattern (23 bp):
TATATATAATCTTTGAAATATAT
Found at i:101417 original size:82 final size:78
Alignment explanation
Indices: 101234--101428 Score: 184
Period size: 82 Copynumber: 2.4 Consensus size: 78
101224 ATTATATATT
* *
101234 TATATAATATAGTTTTTGAAAACATATAATAAATAGTTAAAAAAACGGTTTTGAAAACATATATA
1 TATATAATATTGTTTTTGAAATCATAT-AT--ATAGTTAAAAAAACGGTTTTGAAAACATATATA
101299 ACATAGTTTATGAAAA
63 ACATAGTTTATGAAAA
* * *
101315 TGA-A-AACA-TGTTATTTTGAAATCATATATATAGTTTTAAAAAACGGTTTTTGAAAACGTATA
1 T-ATATAATATTG-T-TTTTGAAATCATATATATAG-TTAAAAAAACGG-TTTTGAAAACATATA
*
101377 TAATATATAGTCTT-TGAAAA
61 T-A-ACATAGT-TTATGAAAA
*
101397 TATATTATATTGTTTTTGAAAT-ATATTATATA
1 TATATAATATTGTTTTTGAAATCATA-TATATA
101429 TTATATAGTT
Statistics
Matches: 94, Mismatches: 8, Indels: 23
0.75 0.06 0.18
Matches are distributed among these distances:
78 4 0.04
79 12 0.13
80 21 0.22
81 20 0.21
82 30 0.32
83 5 0.05
84 2 0.02
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (78 bp):
TATATAATATTGTTTTTGAAATCATATATATAGTTAAAAAAACGGTTTTGAAAACATATATAACA
TAGTTTATGAAAA
Found at i:101420 original size:21 final size:22
Alignment explanation
Indices: 101374--101428 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
101364 TTGAAAACGT
*
101374 ATATAATATATAGTCTTTGAAA
1 ATATATTATATAGTCTTTGAAA
* *
101396 ATATATTATATTGTTTTTG-AA
1 ATATATTATATAGTCTTTGAAA
101417 ATATATTATATA
1 ATATATTATATA
101429 TTATATAGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 13 0.45
22 16 0.55
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (22 bp):
ATATATTATATAGTCTTTGAAA
Found at i:110784 original size:31 final size:32
Alignment explanation
Indices: 110734--110805 Score: 101
Period size: 31 Copynumber: 2.3 Consensus size: 32
110724 GTTAGTTTTG
* *
110734 ATTTTATTCCATTATTTTTTATGATTACTTAT
1 ATTTTATTCCATTATTTTTTATAATTAATTAT
*
110766 ATTTTATTTCATTA-TTTTTATAATTAATTAT
1 ATTTTATTCCATTATTTTTTATAATTAATTAT
*
110797 ACTTTATTC
1 ATTTTATTC
110806 TTTTGAGCTG
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
31 22 0.63
32 13 0.37
ACGTcount: A:0.28, C:0.08, G:0.01, T:0.62
Consensus pattern (32 bp):
ATTTTATTCCATTATTTTTTATAATTAATTAT
Found at i:112801 original size:17 final size:17
Alignment explanation
Indices: 112779--112813 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
112769 TTTTAAACCA
112779 CAAAATAACCGAAAGGC
1 CAAAATAACCGAAAGGC
*
112796 CAAAATAACCTAAAGGC
1 CAAAATAACCGAAAGGC
112813 C
1 C
112814 CTCTTTACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.51, C:0.26, G:0.14, T:0.09
Consensus pattern (17 bp):
CAAAATAACCGAAAGGC
Done.