Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006411.1 Hibiscus syriacus cultivar Beakdansim tig00015461_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: 76523
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:10957 original size:13 final size:15
Alignment explanation
Indices: 10935--10970 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
10925 TAATTCAAAT
10935 AAAA-TATTAT-A-A
1 AAAATTATTATGATA
10947 AAAATTATTATGATA
1 AAAATTATTATGATA
10962 AAAATTATT
1 AAAATTATT
10971 TTTAATTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.19
13 6 0.29
14 1 0.05
15 10 0.48
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (15 bp):
AAAATTATTATGATA
Found at i:11184 original size:25 final size:26
Alignment explanation
Indices: 11134--11191 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 26
11124 TACGTCATAC
* *
11134 TAATAATGTTATTATTTGTTTCAAAA
1 TAATAATATTATTATTTGATTCAAAA
11160 -AATAATATTATTATTTGAATT-AAAA
1 TAATAATATTATTATTTG-ATTCAAAA
11185 TAATAAT
1 TAATAAT
11192 TAAAAAAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 20 0.71
26 8 0.29
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.47
Consensus pattern (26 bp):
TAATAATATTATTATTTGATTCAAAA
Found at i:15876 original size:24 final size:24
Alignment explanation
Indices: 15832--15881 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
15822 ATAAAGAACC
*
15832 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
15856 AAAATAAAGTTCAAACA-ACCATTA
1 AAAATAAACTT-AAACATACCATTA
15880 AA
1 AA
15882 TCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.60, C:0.14, G:0.02, T:0.24
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:20426 original size:47 final size:47
Alignment explanation
Indices: 20372--20465 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
20362 ATTTTAGTTG
20372 GGAAAAATGGAAGTCAGTGTGACTCAAGGGTGCTCTTCTAGTTTTGT
1 GGAAAAATGGAAGTCAGTGTGACTCAAGGGTGCTCTTCTAGTTTTGT
*
20419 GGAAAAATGGAAGTCGGTGTGACTCAAGGGTGCTCTTCTAGTTTTGT
1 GGAAAAATGGAAGTCAGTGTGACTCAAGGGTGCTCTTCTAGTTTTGT
20466 TAAGAAATCC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.24, C:0.13, G:0.31, T:0.32
Consensus pattern (47 bp):
GGAAAAATGGAAGTCAGTGTGACTCAAGGGTGCTCTTCTAGTTTTGT
Found at i:22261 original size:19 final size:20
Alignment explanation
Indices: 22223--22263 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
22213 AAAGAATATT
22223 TGCAACTAAGTACTCTCCAAC
1 TGCAACTAAGTAC-CTCCAAC
22244 TGCAACTAAGTA-CTCCAAC
1 TGCAACTAAGTACCTCCAAC
22263 T
1 T
22264 TTCATTCCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 8 0.40
21 12 0.60
ACGTcount: A:0.34, C:0.32, G:0.10, T:0.24
Consensus pattern (20 bp):
TGCAACTAAGTACCTCCAAC
Found at i:25982 original size:228 final size:228
Alignment explanation
Indices: 25506--26343 Score: 937
Period size: 228 Copynumber: 3.7 Consensus size: 228
25496 GGTCCTGCCA
* * * * * * * *
25506 TCTTCCAGCTGCTTCCCTGCGAAAATCAACCTCTGTTGGTCCGGAGGAATGCCTTCCTTATCCTG
1 TCTTCGAGCTGCTTCCCGGCGAAGATCAATCGCTGCTGGTCCGGAGGGATGCCTTCCTTGTCCTG
* * * * * * * * * * * *
25571 GATTTTCGCTTTCACATTGTCGATCGTGTCCGAGCTCTT--ACCTCAAGGGTAATTGTTTTTCCT
66 AATCTTCGCCTTGACGTTATCGATGGTGTCAGAGCT-TTCGACCTCAAGGGTTATAGTTTTGCCG
* * * * * * * *
25634 GTCAAGGTTTTAACAAAGATCTGCATGCCACCACGAAGCCTGAGCACAAGGTGAAGAGTCGATTC
130 GTCAAGGTTTTAACAAAGATCTGCATGCCACCACGGAGACGGAGGACCAGATGGAGAGTCGACTC
* * * * * * *
25699 CTTCTGAATATTGTAATCGGCCA-AGGTGCGACCA
195 CTTCTGAATGTTATAGTCGGCGAGA-GTACGGCCG
* * *
25733 TCCTCTAGCTGCTTTCCGGCGAAGATCAATCGCTGCTGGTCCGGAGGGATGCCTTCCTTGTCCTG
1 TCTTCGAGCTGCTTCCCGGCGAAGATCAATCGCTGCTGGTCCGGAGGGATGCCTTCCTTGTCCTG
* * * * *
25798 AATCTTCGCCTTGACGTTGTCTATGGTGTCAGAGCTTTCGACTTCAAGAGTTATAGTTTTGCCAG
66 AATCTTCGCCTTGACGTTATCGATGGTGTCAGAGCTTTCGACCTCAAGGGTTATAGTTTTGCCGG
* * * * *
25863 TCAGGGTTTTAACGAAGATCTGCATACCACCACGGAGACGGAGGACCAGATGGAGTGTCGACTCT
131 TCAAGGTTTTAACAAAGATCTGCATGCCACCACGGAGACGGAGGACCAGATGGAGAGTCGACTCC
25928 TTCTGAATGTTATAGTCGGCGAGAGTACGGCCG
196 TTCTGAATGTTATAGTCGGCGAGAGTACGGCCG
* *
25961 TCTTCGAGCTGCTTCCCGGCGAAGATCAATCGCTGTTGGTCCGGAGGTATGCCTTCCTTGTCCTG
1 TCTTCGAGCTGCTTCCCGGCGAAGATCAATCGCTGCTGGTCCGGAGGGATGCCTTCCTTGTCCTG
* * * * * *
26026 AATCTTGGCCTTGACGTTATCTATGGTGTCTGAGCTTTCGACTTCAAGTGTTATAGTCTTGCCGG
66 AATCTTCGCCTTGACGTTATCGATGGTGTCAGAGCTTTCGACCTCAAGGGTTATAGTTTTGCCGG
* * * *
26091 TCAAGGTTTTGACGAAGATCTGCATGCCACCGCGGAGGCGGAGGACCAGATGGAGAGTCGACTCC
131 TCAAGGTTTTAACAAAGATCTGCATGCCACCACGGAGACGGAGGACCAGATGGAGAGTCGACTCC
*
26156 TTCTGGATGTTATAGTCGGCGAGAGTACGGCCG
196 TTCTGAATGTTATAGTCGGCGAGAGTACGGCCG
* * * *
26189 TCTTCGAGTTGCTTGCCGGCGAAGATCAAACGCTGCTGGTCCGGAGGGATACCTTCCTTGTCCTG
1 TCTTCGAGCTGCTTCCCGGCGAAGATCAATCGCTGCTGGTCCGGAGGGATGCCTTCCTTGTCCTG
* * * * * * * * *
26254 GATCTTGGCCTTAACGTTATCGATGGTGTCGGAGCTCTCCACCTCGAGGGTTATTGTTTTTCCGG
66 AATCTTCGCCTTGACGTTATCGATGGTGTCAGAGCTTTCGACCTCAAGGGTTATAGTTTTGCCGG
* *
26319 TGAGGGTCTTT-ACAAAGATCTGCAT
131 TCAAGGT-TTTAACAAAGATCTGCAT
26344 CTTCGACAAA
Statistics
Matches: 523, Mismatches: 84, Indels: 7
0.85 0.14 0.01
Matches are distributed among these distances:
226 2 0.00
227 83 0.16
228 434 0.83
229 4 0.01
ACGTcount: A:0.20, C:0.24, G:0.27, T:0.29
Consensus pattern (228 bp):
TCTTCGAGCTGCTTCCCGGCGAAGATCAATCGCTGCTGGTCCGGAGGGATGCCTTCCTTGTCCTG
AATCTTCGCCTTGACGTTATCGATGGTGTCAGAGCTTTCGACCTCAAGGGTTATAGTTTTGCCGG
TCAAGGTTTTAACAAAGATCTGCATGCCACCACGGAGACGGAGGACCAGATGGAGAGTCGACTCC
TTCTGAATGTTATAGTCGGCGAGAGTACGGCCG
Found at i:26343 original size:456 final size:455
Alignment explanation
Indices: 25506--26343 Score: 1034
Period size: 456 Copynumber: 1.8 Consensus size: 455
25496 GGTCCTGCCA
* *
25506 TCTTCCAGCTGCTTCCCTGCGAAAATCAACCTCTGTTGGTCCGGAGGAATGCCTTCCTTATCCTG
1 TCTTCCAGCTGCTTCCCGGCGAAAATCAACCGCTGTTGGTCCGGAGGAATGCCTTCCTTATCCTG
* * * * * * * *
25571 GATTTTCGCTTTCACATTGTCGATCGTGTCCGAGCTCTTACCTCAAGGGTAATTGTTTTTCCTGT
66 AATCTTCGCCTTCACATTATCGATCGTGTCCGAGCTCTTACCTCAAGGGTAATAGTCTTGCCGGT
* * *
25636 CAAGGTTTTAACAAAGATCTGCATGCCACCACGAAGCCTGAGCACAAGGTGAAGAGTCGATTCCT
131 CAAGGTTTTAACAAAGATCTGCATGCCACCACGAAGCCGGAGCACAAGATGAAGAGTCGACTCCT
* * * * *
25701 TCTGAATATTGTAATCGGCCAAGGTGCGACCATCCTCTAGCTGCTTTCCGGCGAAGATCAATCGC
196 TCTGAATATTATAATCGGCCAAGGTACGACCATCCTCGAGCTGCTTGCCGGCGAAGATCAAACGC
* * * *
25766 TGCTGGTCCGGAGGGATGCCTTCCTTGTCCTGAATCTTCGCCTTGACGTTGTCTATGGTGTCAGA
261 TGCTGGTCCGGAGGGATACCTTCCTTGTCCTGAATCTTCGCCTTAACGTTATCGATGGTGTCAGA
* * * *
25831 GCTTTCGACTTCAAGAGTTATAGTTTTGCCAGTCAGGGTTTTAACGAAGATCTGCATACCACCAC
326 GCTCTCCACCTCAAGAGTTATAGTTTTGCCAGTCAGGGTTTTAACAAAGATCTGCATACCACCAC
25896 GGAGACGGAGGACCAGATGGAGTGTCGACTCTTTCTGAATGTTATAGTCGGCGAGAGTACGGCCG
391 GGAGACGGAGGACCAGATGGAGTGTCGACTCTTTCTGAATGTTATAGTCGGCGAGAGTACGGCCG
* * * * *
25961 TCTTCGAGCTGCTTCCCGGCGAAGATCAATCGCTGTTGGTCCGGAGGTATGCCTTCCTTGTCCTG
1 TCTTCCAGCTGCTTCCCGGCGAAAATCAACCGCTGTTGGTCCGGAGGAATGCCTTCCTTATCCTG
* * * * * * * * *
26026 AATCTTGGCCTTGACGTTATCTATGGTGTCTGAGCT-TTCGACTTCAAGTGTTATAGTCTTGCCG
66 AATCTTCGCCTTCACATTATCGATCGTGTCCGAGCTCTT--ACCTCAAGGGTAATAGTCTTGCCG
* * * * * * * *
26090 GTCAAGGTTTTGACGAAGATCTGCATGCCACCGCGGAGGCGGAGGACCAGATGGAGAGTCGACTC
129 GTCAAGGTTTTAACAAAGATCTGCATGCCACCACGAAGCCGGAGCACAAGATGAAGAGTCGACTC
* * * * * * * *
26155 CTTCTGGATGTTATAGTCGG-CGAGAGTACGGCCGTCTTCGAGTTGCTTGCCGGCGAAGATCAAA
194 CTTCTGAATATTATAATCGGCCAAG-GTACGACCATCCTCGAGCTGCTTGCCGGCGAAGATCAAA
* *
26219 CGCTGCTGGTCCGGAGGGATACCTTCCTTGTCCTGGATCTTGGCCTTAACGTTATCGATGGTGTC
258 CGCTGCTGGTCCGGAGGGATACCTTCCTTGTCCTGAATCTTCGCCTTAACGTTATCGATGGTGTC
* * * * * * *
26284 GGAGCTCTCCACCTCGAGGGTTATTGTTTTTCCGGTGAGGGTCTTT-ACAAAGATCTGCAT
323 AGAGCTCTCCACCTCAAGAGTTATAGTTTTGCCAGTCAGGGT-TTTAACAAAGATCTGCAT
26344 CTTCGACAAA
Statistics
Matches: 314, Mismatches: 65, Indels: 7
0.81 0.17 0.02
Matches are distributed among these distances:
454 2 0.01
455 87 0.28
456 222 0.71
457 3 0.01
ACGTcount: A:0.20, C:0.24, G:0.27, T:0.29
Consensus pattern (455 bp):
TCTTCCAGCTGCTTCCCGGCGAAAATCAACCGCTGTTGGTCCGGAGGAATGCCTTCCTTATCCTG
AATCTTCGCCTTCACATTATCGATCGTGTCCGAGCTCTTACCTCAAGGGTAATAGTCTTGCCGGT
CAAGGTTTTAACAAAGATCTGCATGCCACCACGAAGCCGGAGCACAAGATGAAGAGTCGACTCCT
TCTGAATATTATAATCGGCCAAGGTACGACCATCCTCGAGCTGCTTGCCGGCGAAGATCAAACGC
TGCTGGTCCGGAGGGATACCTTCCTTGTCCTGAATCTTCGCCTTAACGTTATCGATGGTGTCAGA
GCTCTCCACCTCAAGAGTTATAGTTTTGCCAGTCAGGGTTTTAACAAAGATCTGCATACCACCAC
GGAGACGGAGGACCAGATGGAGTGTCGACTCTTTCTGAATGTTATAGTCGGCGAGAGTACGGCCG
Found at i:27905 original size:27 final size:27
Alignment explanation
Indices: 27874--28015 Score: 101
Period size: 27 Copynumber: 5.3 Consensus size: 27
27864 ACTTACACGT
27874 TCACCATGGTTTGGCATACGTTGTTGA
1 TCACCATGGTTTGGCATACGTTGTTGA
* *** **
27901 CCACCATCACTTGTTATA-GATTGTTGA
1 TCACCATGGTTTGGCATACG-TTGTTGA
* * *
27928 TCACCATGGTTCGGCACAGGTTGTTGA
1 TCACCATGGTTTGGCATACGTTGTTGA
* *
27955 TCACCATGGCTTGG-A-GCAGATTGTTGA
1 TCACCATGGTTTGGCATAC-G-TTGTTGA
* * *
27982 TCACTATGGTTTGGCATATGTTCTTGA
1 TCACCATGGTTTGGCATACGTTGTTGA
*
28009 TGACCAT
1 TCACCAT
28016 CGCTCGACCT
Statistics
Matches: 84, Mismatches: 25, Indels: 12
0.69 0.21 0.10
Matches are distributed among these distances:
26 3 0.04
27 78 0.93
28 3 0.04
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.35
Consensus pattern (27 bp):
TCACCATGGTTTGGCATACGTTGTTGA
Found at i:27960 original size:54 final size:54
Alignment explanation
Indices: 27874--28016 Score: 162
Period size: 54 Copynumber: 2.6 Consensus size: 54
27864 ACTTACACGT
* * *
27874 TCACCATGGTTTGGCATACGTTGTTGACCACCATCACTTGTTA-TAGATTGTTGA
1 TCACCATGGTTTGGCATACGTTGTTGATCACCATCACTTG-GAGCAGATTGTTGA
* * * **
27928 TCACCATGGTTCGGCACAGGTTGTTGATCACCATGGCTTGGAGCAGATTGTTGA
1 TCACCATGGTTTGGCATACGTTGTTGATCACCATCACTTGGAGCAGATTGTTGA
* * * *
27982 TCACTATGGTTTGGCATATGTTCTTGATGACCATC
1 TCACCATGGTTTGGCATACGTTGTTGATCACCATC
28017 GCTCGACCTT
Statistics
Matches: 73, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
53 1 0.01
54 72 0.99
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.35
Consensus pattern (54 bp):
TCACCATGGTTTGGCATACGTTGTTGATCACCATCACTTGGAGCAGATTGTTGA
Found at i:30908 original size:21 final size:21
Alignment explanation
Indices: 30878--31023 Score: 124
Period size: 21 Copynumber: 7.0 Consensus size: 21
30868 GATTTACATA
*
30878 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
30899 TTCGCGTTGCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
*
30922 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
30941 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
30964 TT--CGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
** *
30983 TTCGTATTGCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
31006 TT--CGTTGCGATAGTCCAA
1 TTCGCGTTGCGATAGTCCAA
31024 AATTGCAACG
Statistics
Matches: 100, Mismatches: 15, Indels: 22
0.73 0.11 0.16
Matches are distributed among these distances:
19 25 0.25
21 47 0.47
23 28 0.28
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.36
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:30935 original size:42 final size:42
Alignment explanation
Indices: 30884--31023 Score: 244
Period size: 42 Copynumber: 3.3 Consensus size: 42
30874 CATATTCGCA
30884 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
* *
30926 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
**
30968 TTGCGATAGTCCAAGTTCGTATTGCGATTTATTCCAAGTTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
31010 TTGCGATAGTCCAA
1 TTGCGATAGTCCAA
31024 AATTGCAACG
Statistics
Matches: 92, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 92 1.00
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (42 bp):
TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
Found at i:31125 original size:11 final size:11
Alignment explanation
Indices: 31109--31155 Score: 69
Period size: 11 Copynumber: 4.3 Consensus size: 11
31099 GACACGTACT
31109 ACCACGACCCG
1 ACCACGACCCG
*
31120 ACCACGACACG
1 ACCACGACCCG
31131 ACCACGACCACG
1 ACCACGACC-CG
31143 ACC-CGACCCG
1 ACCACGACCCG
31153 ACC
1 ACC
31156 CGAGAGAGAC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
10 5 0.15
11 23 0.70
12 5 0.15
ACGTcount: A:0.30, C:0.53, G:0.17, T:0.00
Consensus pattern (11 bp):
ACCACGACCCG
Found at i:31136 original size:6 final size:6
Alignment explanation
Indices: 31109--31155 Score: 66
Period size: 5 Copynumber: 8.5 Consensus size: 6
31099 GACACGTACT
31109 ACCACG ACC-CG ACCACG A-CACG ACCACG ACCACG ACC-CG ACC-CG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
31153 ACC
1 ACC
31156 CGAGAGAGAC
Statistics
Matches: 39, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
5 20 0.51
6 19 0.49
ACGTcount: A:0.30, C:0.53, G:0.17, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:31811 original size:21 final size:21
Alignment explanation
Indices: 31787--31943 Score: 164
Period size: 21 Copynumber: 7.6 Consensus size: 21
31777 TTTGGAATAA
*
31787 ATCGCAACGCGAACTTCGACT
1 ATCGCAATGCGAACTTCGACT
*
31808 ATCGCAATGCGAACTTGGACT
1 ATCGCAATGCGAACTTCGACT
* *
31829 ATCGCAATGTGATA-GTCGACT
1 ATCGCAATGCGA-ACTTCGACT
*
31850 ATCGCAATGCGAACTTGGACT
1 ATCGCAATGCGAACTTCGACT
*
31871 ATCGCAATGCGAA-TAT-GTA-A
1 ATCGCAATGCGAACT-TCG-ACT
*
31891 ATCGC-ATGCGATA-GTCGACT
1 ATCGCAATGCGA-ACTTCGACT
*
31911 ATCGCAATGCGAACTTGGACT
1 ATCGCAATGCGAACTTCGACT
31932 ATCGCAATGCGA
1 ATCGCAATGCGA
31944 TTTACATATT
Statistics
Matches: 114, Mismatches: 13, Indels: 18
0.79 0.09 0.12
Matches are distributed among these distances:
19 8 0.07
20 16 0.14
21 89 0.78
22 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.24
Consensus pattern (21 bp):
ATCGCAATGCGAACTTCGACT
Found at i:31833 original size:42 final size:41
Alignment explanation
Indices: 31762--31943 Score: 169
Period size: 42 Copynumber: 4.4 Consensus size: 41
31752 TGCGATTTTG
* * *
31762 GACTATCGCAA--CGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAATGCGAACTTGGACT--ATCGCAATGCGAA-TTC
* *
31804 GACTATCGCAATGCGAACTTGGACTATCGCAATGTGATAGTC
1 GACTATCGCAATGCGAACTTGGACTATCGCAATGCGA-ATTC
31846 GACTATCGCAATGCGAACTTGGACTATCGCAATGCGAATAT-
1 GACTATCGCAATGCGAACTTGGACTATCGCAATGCGAAT-TC
* * * *
31887 GTA-AATCGC-ATGCGATA-GTCGACTATCGCAATGCGAACTTG
1 G-ACTATCGCAATGCGA-ACTTGGACTATCGCAATGCGAA-TTC
31928 GACTATCGCAATGCGA
1 GACTATCGCAATGCGA
31944 TTTACATATT
Statistics
Matches: 119, Mismatches: 11, Indels: 20
0.79 0.07 0.13
Matches are distributed among these distances:
40 26 0.22
41 15 0.13
42 67 0.56
43 1 0.01
44 10 0.08
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.24
Consensus pattern (41 bp):
GACTATCGCAATGCGAACTTGGACTATCGCAATGCGAATTC
Found at i:31924 original size:61 final size:61
Alignment explanation
Indices: 31787--31984 Score: 258
Period size: 61 Copynumber: 3.2 Consensus size: 61
31777 TTTGGAATAA
* * * * *
31787 ATCGCAACGCGAACTTCGACTATCGCAATGCGAACTTGGACTATCGCAATGTGATAGTCGACT
1 ATCGCAATGCGAACTTGGACTATCGCAATGCGAA-TTGTACAATCGC-ATGCGATAGTCGACT
31850 ATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGTA-AATCGCATGCGATAGTCGACT
1 ATCGCAATGCGAACTTGGACTATCGCAATGCGAAT-TGTACAATCGCATGCGATAGTCGACT
*
31911 ATCGCAATGCGAACTTGGACTATCGCAATGCG-ATT-TACATATTCGCATTGCGATAGTTGACT
1 ATCGCAATGCGAACTTGGACTATCGCAATGCGAATTGTACA-A-TCGCA-TGCGATAGTCGACT
*
31973 ATCGCATTGCGA
1 ATCGCAATGCGA
31985 TTTACATATT
Statistics
Matches: 123, Mismatches: 7, Indels: 11
0.87 0.05 0.08
Matches are distributed among these distances:
58 2 0.02
59 2 0.02
60 3 0.02
61 51 0.41
62 30 0.24
63 35 0.28
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (61 bp):
ATCGCAATGCGAACTTGGACTATCGCAATGCGAATTGTACAATCGCATGCGATAGTCGACT
Found at i:31957 original size:41 final size:41
Alignment explanation
Indices: 31912--31997 Score: 129
Period size: 41 Copynumber: 2.1 Consensus size: 41
31902 TAGTCGACTA
31912 TCGCAATGCGA-ACTTGGACTATCGCAATGCGATTTACATAT
1 TCGCAATGCGATACTT-GACTATCGCAATGCGATTTACATAT
* * *
31953 TCGCATTGCGATAGTTGACTATCGCATTGCGATTTACATAT
1 TCGCAATGCGATACTTGACTATCGCAATGCGATTTACATAT
31994 TCGC
1 TCGC
31998 GTTACGATAG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
41 38 0.93
42 3 0.07
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.33
Consensus pattern (41 bp):
TCGCAATGCGATACTTGACTATCGCAATGCGATTTACATAT
Found at i:32006 original size:41 final size:41
Alignment explanation
Indices: 31928--32008 Score: 135
Period size: 41 Copynumber: 2.0 Consensus size: 41
31918 TGCGAACTTG
*
31928 GACTATCGCAATGCGATTTACATATTCGCATTGCGATAGTT
1 GACTATCGCAATGCGATTTACATATTCGCATTACGATAGTT
* *
31969 GACTATCGCATTGCGATTTACATATTCGCGTTACGATAGT
1 GACTATCGCAATGCGATTTACATATTCGCATTACGATAGT
32009 CCAAGTTCGC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.35
Consensus pattern (41 bp):
GACTATCGCAATGCGATTTACATATTCGCATTACGATAGTT
Found at i:32018 original size:62 final size:63
Alignment explanation
Indices: 31952--32338 Score: 385
Period size: 62 Copynumber: 6.3 Consensus size: 63
31942 GATTTACATA
* * *
31952 TTCGCATTGCGATAGTTGAC-TA-TCGCATTGCGATTTACATATTCGCGTTACGATAGTCCAAG
1 TTCGCATTGCGATAGTT-ACATATTCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAC
* * *
32014 TTCGCATTGCGATAGTCGAC-TA-TCGCAATGCGATTTACATATTCGCATTGCGATAGT-CGAC
1 TTCGCATTGCGATAGT-TACATATTCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAC
* * * *
32075 TATCGCATTGCGAT--TTACATATTTGCATTGCGATAGTCCA-AGTTCGCATTGCGATAGT-CGA
1 T-TCGCATTGCGATAGTTACATATTCGCATTGCGAT-TTACATA-TTCGCATTGCGATAGTCCAA
32136 C
63 C
* * * * *
32137 TATCGCAATGCGAT--TTACATATTCACATTGCGATAGTCCA-AGTTCGCATTGCGATAG-CCGA
1 T-TCGCATTGCGATAGTTACATATTCGCATTGCGAT-TTACATA-TTCGCATTGCGATAGTCCAA
32198 C
63 C
* *
32199 TATCGCATTGCGAT--TTACATATTCGCATTGCGATTTACATATTCGTATTGCGATAGTCCAAG
1 T-TCGCATTGCGATAGTTACATATTCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAC
* * *
32261 TTCGCATTGCGATAGTCGAC-TA-TCGCATTGCAATTTACATATTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGT-TACATATTCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAC
32323 TTCGCATTGCGATAGT
1 TTCGCATTGCGATAGT
32339 CCAAGTTCGC
Statistics
Matches: 289, Mismatches: 24, Indels: 24
0.86 0.07 0.07
Matches are distributed among these distances:
59 2 0.01
60 3 0.01
61 43 0.15
62 236 0.82
63 3 0.01
64 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (63 bp):
TTCGCATTGCGATAGTTACATATTCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAC
Found at i:32019 original size:41 final size:41
Alignment explanation
Indices: 31929--32026 Score: 126
Period size: 41 Copynumber: 2.4 Consensus size: 41
31919 GCGAACTTGG
* * **
31929 ACTATCGCAATGCGATTTACATATTCGCATTGCGATAGTTG
1 ACTATCGCATTGCGATTTACATATTCGCATTACGATAGTCA
*
31970 ACTATCGCATTGCGATTTACATATTCGCGTTACGATAGTCCA
1 ACTATCGCATTGCGATTTACATATTCGCATTACGATAGT-CA
*
32012 AGT-TCGCATTGCGAT
1 ACTATCGCATTGCGAT
32027 AGTCGACTAT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
41 48 0.96
42 2 0.04
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (41 bp):
ACTATCGCATTGCGATTTACATATTCGCATTACGATAGTCA
Found at i:32059 original size:41 final size:41
Alignment explanation
Indices: 32014--32335 Score: 281
Period size: 41 Copynumber: 7.8 Consensus size: 41
32004 ATAGTCCAAG
*
32014 TTCGCATTGCGATAGTCGACTATCGCAATGCGATTTACATA
1 TTCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATA
32055 TTCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATA
1 TTCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATA
* * * *
32096 TTTGCATTGCGATAGTCCAAGT-TCGCATTGCGATAGT-CGACTA
1 TTCGCATTGCGATAGT-CGACTATCGCATTGCGAT-TTAC-A-TA
* * * * *
32139 -TCGCAATGCGAT--T-TACATATTCACATTGCGATAGTCCA-A
1 TTCGCATTGCGATAGTCGAC-TA-TCGCATTGCGAT-TTACATA
*
32178 GTTCGCATTGCGATAGCCGACTATCGCATTGCGATTTACATA
1 -TTCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATA
* * * *
32220 TTCGCATTGCGAT--T-TACATATTCGTATTGCGATAGTCCA-A
1 TTCGCATTGCGATAGTCGAC-TA-TCGCATTGCGAT-TTACATA
*
32260 GTTCGCATTGCGATAGTCGACTATCGCATTGCAATTTACATA
1 -TTCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATA
* *
32302 TTCGCATTGCGATAGTCCAAGT-TCGCATTGCGAT
1 TTCGCATTGCGATAGT-CGACTATCGCATTGCGAT
32336 AGTCCAAGTT
Statistics
Matches: 229, Mismatches: 29, Indels: 46
0.75 0.10 0.15
Matches are distributed among these distances:
38 3 0.01
39 4 0.02
40 13 0.06
41 156 0.68
42 42 0.18
43 7 0.03
44 4 0.02
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (41 bp):
TTCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATA
Found at i:32170 original size:20 final size:20
Alignment explanation
Indices: 31933--32314 Score: 218
Period size: 21 Copynumber: 18.6 Consensus size: 20
31923 ACTTGGACTA
*
31933 TCGCAATGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
31953 TCGCATTGCGATAGTTGAC-TA-
1 TCGCATTGCGAT--TT-ACATAT
31974 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
* * * *
31994 TCGCGTTACGATAGTCCA-AGT
1 TCGCATTGCGAT-TTACATA-T
*
32015 TCGCATTGCGATAGT-CGACTA-
1 TCGCATTGCGAT-TTAC-A-TAT
*
32036 TCGCAATGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
*
32056 TCGCATTGCGATAGT-CGACTA-
1 TCGCATTGCGAT-TTAC-A-TAT
32077 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
* * *
32097 TTGCATTGCGATAGTCCA-AGT
1 TCGCATTGCGAT-TTACATA-T
*
32118 TCGCATTGCGATAGT-CGACTA-
1 TCGCATTGCGAT-TTAC-A-TAT
*
32139 TCGCAATGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
* * *
32159 TCACATTGCGATAGTCCA-AGT
1 TCGCATTGCGAT-TTACATA-T
***
32180 TCGCATTGCGATAGCCGACTA-
1 TCGCATTGCGATTTAC-A-TAT
32201 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
32221 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
* * *
32241 TCGTATTGCGATAGTCCA-AGT
1 TCGCATTGCGAT-TTACATA-T
*
32262 TCGCATTGCGATAGT-CGACTA-
1 TCGCATTGCGAT-TTAC-A-TAT
*
32283 TCGCATTGCAATTTACATAT
1 TCGCATTGCGATTTACATAT
32303 TCGCATTGCGAT
1 TCGCATTGCGAT
32315 AGTCCAAGTT
Statistics
Matches: 290, Mismatches: 35, Indels: 74
0.73 0.09 0.19
Matches are distributed among these distances:
18 2 0.01
19 14 0.05
20 114 0.39
21 148 0.51
22 6 0.02
23 6 0.02
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (20 bp):
TCGCATTGCGATTTACATAT
Found at i:32319 original size:144 final size:144
Alignment explanation
Indices: 32077--32337 Score: 477
Period size: 144 Copynumber: 1.8 Consensus size: 144
32067 TAGTCGACTA
*
32077 TCGCATTGCGATTTACATATTTGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGACTATCG
1 TCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGACTATCG
*
32142 CAATGCGATTTACATATTCACATTGCGATAGTCCAAGTTCGCATTGCGATAGCCGACTATCGCAT
66 CAATGCAATTTACATATTCACATTGCGATAGTCCAAGTTCGCATTGCGATAGCCGACTATCGCAT
32207 TGCGATTTACATAT
131 TGCGATTTACATAT
*
32221 TCGCATTGCGATTTACATATTCGTATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGACTATCG
1 TCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGACTATCG
* *
32286 CATTGCAATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAG
66 CAATGCAATTTACATATTCACATTGCGATAGTCCAAGTTCGCATTGCGATAG
32338 TCCAAGTTCG
Statistics
Matches: 112, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
144 112 1.00
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (144 bp):
TCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGACTATCG
CAATGCAATTTACATATTCACATTGCGATAGTCCAAGTTCGCATTGCGATAGCCGACTATCGCAT
TGCGATTTACATAT
Found at i:32339 original size:62 final size:62
Alignment explanation
Indices: 31892--32339 Score: 367
Period size: 62 Copynumber: 7.3 Consensus size: 62
31882 AATATGTAAA
* * * * *
31892 TCGCA-TGCGATAGTCGACTATCGCAATGCGAACTTGGAC-TA-TCGCAATGCGAT-TTACATA-
1 TCGCATTGCGATAGTCGACTATCGCATTGCG-A-TT-TACATATTCGCATTGCGATAGTCCA-AC
31952 T
62 T
* * * *
31953 TCGCATTGCGATAGTTGACTATCGCATTGCGATTTACATATTCGCGTTACGATAGTCCAAGT
1 TCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAACT
* *
32015 TCGCATTGCGATAGTCGACTATCGCAATGCGATTTACATATTCGCATTGCGATAGT-CGACT
1 TCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAACT
* * * * *
32076 ATCGCATTGCGAT--T-TACATATTTGCATTGCGATAGTCCA-AGTTCGCATTGCGATAGT-CGA
1 -TCGCATTGCGATAGTCGAC-TA-TCGCATTGCGAT-TTACATA-TTCGCATTGCGATAGTCCAA
32136 CT
61 CT
* * * * * *
32138 ATCGCAATGCGAT--T-TACATATTCACATTGCGATAGTCCA-AGTTCGCATTGCGATAG-CCGA
1 -TCGCATTGCGATAGTCGAC-TA-TCGCATTGCGAT-TTACATA-TTCGCATTGCGATAGTCCAA
32198 CT
61 CT
* * *
32200 ATCGCATTGCGAT--T-TACATATTCGCATTGCGATTTACATATTCGTATTGCGATAGTCCAAGT
1 -TCGCATTGCGATAGTCGAC-TA-TCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAACT
* *
32262 TCGCATTGCGATAGTCGACTATCGCATTGCAATTTACATATTCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAACT
32324 TCGCATTGCGATAGTC
1 TCGCATTGCGATAGTC
32340 CAAGTTCGCG
Statistics
Matches: 339, Mismatches: 32, Indels: 31
0.84 0.08 0.08
Matches are distributed among these distances:
59 4 0.01
60 7 0.02
61 59 0.17
62 264 0.78
63 3 0.01
64 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.32
Consensus pattern (62 bp):
TCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAACT
Found at i:32377 original size:103 final size:103
Alignment explanation
Indices: 31929--32339 Score: 467
Period size: 103 Copynumber: 4.0 Consensus size: 103
31919 GCGAACTTGG
* * *
31929 ACTATCGCAATGCGATTTACATATTCGCATTGCGATAGTTGACTATCGCATTGCGATTTACATAT
1 ACTATCGCAATGCGATCTACAAATTCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATAT
* * *
31994 TCGCGTTACGATAGTCCAAGTTCGCATTGCGATAGTCG
66 TCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCA
* *
32032 ACTATCGCAATGCGATTTACATATTCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATAT
1 ACTATCGCAATGCGATCTACAAATTCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATAT
* *
32097 TTGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCG
66 TCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCA
* * * * * ***
32135 ACTATCGCAATGCGATTTACATATTCACATTGCGATAGTCCAAGT-TCGCATTGCGATAGCCGAC
1 ACTATCGCAATGCGATCTACAAATTCGCATTGCGATAGT-CGACTATCGCATTGCGATTTAC-A-
* * *
32199 TA-TCGCATTGCGAT-TTACATA-TTCGCATTGCGAT--T-T
63 TATTCGCATTGCGATAGTCCA-AGTTCGCATTGCGATAGTCA
* * * * * *
32235 ACATATTCGTATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGACTATCGCATTGCAATTTACA
1 AC-TA-TCGCAATGCGAT-CTACAAATTCGCATTGCGATAGTCGACTATCGCATTGCGATTTACA
32300 TATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTC
63 TATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTC
32340 CAAGTTCGCG
Statistics
Matches: 265, Mismatches: 29, Indels: 25
0.83 0.09 0.08
Matches are distributed among these distances:
100 2 0.01
101 5 0.02
102 27 0.10
103 212 0.80
104 16 0.06
105 3 0.01
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.33
Consensus pattern (103 bp):
ACTATCGCAATGCGATCTACAAATTCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATAT
TCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCA
Found at i:32705 original size:41 final size:43
Alignment explanation
Indices: 32647--32727 Score: 121
Period size: 41 Copynumber: 1.9 Consensus size: 43
32637 AGCAGAGACT
32647 TAACAAAATATGCACATT-AT-ACCAACTACTAATTGATCGGA
1 TAACAAAATATGCACATTAATAACCAACTACTAATTGATCGGA
* * *
32688 TAACAAAATATGTACATTAATAACCAATTATTAATTGATC
1 TAACAAAATATGCACATTAATAACCAACTACTAATTGATC
32728 AAGATGGGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
41 17 0.49
42 2 0.06
43 16 0.46
ACGTcount: A:0.46, C:0.16, G:0.07, T:0.31
Consensus pattern (43 bp):
TAACAAAATATGCACATTAATAACCAACTACTAATTGATCGGA
Found at i:35098 original size:37 final size:37
Alignment explanation
Indices: 35048--35122 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
35038 AGAGGATGTG
35048 GCATCTAAGATAGCATCCACTAAGATGATGTAAGATA
1 GCATCTAAGATAGCATCCACTAAGATGATGTAAGATA
*
35085 GCATCTAAGATAGCATCCACTAAGATGATGTAATATA
1 GCATCTAAGATAGCATCCACTAAGATGATGTAAGATA
35122 G
1 G
35123 ACATACCATC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (37 bp):
GCATCTAAGATAGCATCCACTAAGATGATGTAAGATA
Found at i:35110 original size:15 final size:12
Alignment explanation
Indices: 35048--35101 Score: 58
Period size: 12 Copynumber: 4.4 Consensus size: 12
35038 AGAGGATGTG
35048 GCATCTAAGATA
1 GCATCTAAGATA
35060 GCATCCACTAAGAT-
1 GCAT---CTAAGATA
*
35074 G-ATGTAAGATA
1 GCATCTAAGATA
35085 GCATCTAAGATA
1 GCATCTAAGATA
35097 GCATC
1 GCATC
35102 CACTAAGATG
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
10 6 0.17
11 1 0.03
12 18 0.51
13 2 0.06
14 1 0.03
15 7 0.20
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.24
Consensus pattern (12 bp):
GCATCTAAGATA
Found at i:42481 original size:43 final size:44
Alignment explanation
Indices: 42425--42716 Score: 384
Period size: 43 Copynumber: 6.8 Consensus size: 44
42415 AGGTCTTATA
* * * *
42425 CTTGCACATAGCAAAAGAG-CCCGTGGAAACTGTAAGGCTTACC
1 CTTGCACACAGCAAAAGAGACCTGGGGGAACTGTAAGGCTTACC
* * *
42468 CTTGCACACAGC-AAAG-GAACTTGGGAAACTGTAAGGCTTACC
1 CTTGCACACAGCAAAAGAGACCTGGGGGAACTGTAAGGCTTACC
* *
42510 CTTGCACACAGCAAAGGA-ACCTGGGGGAGCTGTAAGGCTTACC
1 CTTGCACACAGCAAAAGAGACCTGGGGGAACTGTAAGGCTTACC
* *
42553 CTTGCACACAAC-AAAGGGACCTGGGGGAACTGTAAGGCTTACC
1 CTTGCACACAGCAAAAGAGACCTGGGGGAACTGTAAGGCTTACC
* *
42596 CTTGCACACAGC-AAAGGGACATGGGGGAACTGTAAGGCTTACC
1 CTTGCACACAGCAAAAGAGACCTGGGGGAACTGTAAGGCTTACC
* *
42639 CTTGCACACAGC-AAAGGGACTTGGGGGAACTGTAAGGCTTACC
1 CTTGCACACAGCAAAAGAGACCTGGGGGAACTGTAAGGCTTACC
*
42682 CTTGCACACAGC-AAAGGGACCTGGGGGAACTGTAA
1 CTTGCACACAGCAAAAGAGACCTGGGGGAACTGTAA
42717 CGGTAATTAA
Statistics
Matches: 227, Mismatches: 18, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
41 1 0.00
42 39 0.17
43 187 0.82
ACGTcount: A:0.30, C:0.24, G:0.28, T:0.17
Consensus pattern (44 bp):
CTTGCACACAGCAAAAGAGACCTGGGGGAACTGTAAGGCTTACC
Found at i:42609 original size:86 final size:86
Alignment explanation
Indices: 42452--42716 Score: 451
Period size: 86 Copynumber: 3.1 Consensus size: 86
42442 AGCCCGTGGA
* * *
42452 AACTGTAAGGCTTACCCTTGCACACAGCAAA-GGAACTTGGGAAACTGTAAGGCTTACCCTTGCA
1 AACTGTAAGGCTTACCCTTGCACACAGCAAAGGGACCTGGGGGAACTGTAAGGCTTACCCTTGCA
*
42516 CACAGCAAAGGAACCTGGGGG
66 CACAGCAAAGGGACCTGGGGG
* *
42537 AGCTGTAAGGCTTACCCTTGCACACAACAAAGGGACCTGGGGGAACTGTAAGGCTTACCCTTGCA
1 AACTGTAAGGCTTACCCTTGCACACAGCAAAGGGACCTGGGGGAACTGTAAGGCTTACCCTTGCA
*
42602 CACAGCAAAGGGACATGGGGG
66 CACAGCAAAGGGACCTGGGGG
*
42623 AACTGTAAGGCTTACCCTTGCACACAGCAAAGGGACTTGGGGGAACTGTAAGGCTTACCCTTGCA
1 AACTGTAAGGCTTACCCTTGCACACAGCAAAGGGACCTGGGGGAACTGTAAGGCTTACCCTTGCA
42688 CACAGCAAAGGGACCTGGGGG
66 CACAGCAAAGGGACCTGGGGG
42709 AACTGTAA
1 AACTGTAA
42717 CGGTAATTAA
Statistics
Matches: 168, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
85 29 0.17
86 139 0.83
ACGTcount: A:0.30, C:0.24, G:0.28, T:0.17
Consensus pattern (86 bp):
AACTGTAAGGCTTACCCTTGCACACAGCAAAGGGACCTGGGGGAACTGTAAGGCTTACCCTTGCA
CACAGCAAAGGGACCTGGGGG
Found at i:42664 original size:129 final size:128
Alignment explanation
Indices: 42452--42716 Score: 458
Period size: 129 Copynumber: 2.1 Consensus size: 128
42442 AGCCCGTGGA
*
42452 AACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACTTGGGAAACTGTAAGGCTTACCCTTGCAC
1 AACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACTGGGGAAACTGTAAGGCTTACCCTTGCAC
*
42517 ACAGCAAAGGAACCTGGGGGAGCTGTAAGGCTTACCCTTGCACACAACAAAGGGACCTGGGGG
66 ACAGCAAAGGAACCTGGGGGAACTGTAAGGCTTACCCTTGCACACAACAAAGGGACCTGGGGG
* *
42580 AACTGTAAGGCTTACCCTTGCACACAGCAAAGGGACATGGGGGAACTGTAAGGCTTACCCTTGCA
1 AACTGTAAGGCTTACCCTTGCACACAGCAAAGGAAC-TGGGGAAACTGTAAGGCTTACCCTTGCA
* * *
42645 CACAGCAAAGGGACTTGGGGGAACTGTAAGGCTTACCCTTGCACACAGCAAAGGGACCTGGGGG
65 CACAGCAAAGGAACCTGGGGGAACTGTAAGGCTTACCCTTGCACACAACAAAGGGACCTGGGGG
42709 AACTGTAA
1 AACTGTAA
42717 CGGTAATTAA
Statistics
Matches: 129, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
128 35 0.27
129 94 0.73
ACGTcount: A:0.30, C:0.24, G:0.28, T:0.17
Consensus pattern (128 bp):
AACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACTGGGGAAACTGTAAGGCTTACCCTTGCAC
ACAGCAAAGGAACCTGGGGGAACTGTAAGGCTTACCCTTGCACACAACAAAGGGACCTGGGGG
Found at i:48374 original size:24 final size:25
Alignment explanation
Indices: 48347--48403 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 25
48337 ATATAAATAT
48347 TTCTGATTTC-CGACTTGAATTATG
1 TTCTGATTTCACGACTTGAATTATG
* **
48371 TTCTGA-TACATTACTTGAATTATG
1 TTCTGATTTCACGACTTGAATTATG
48395 TTCTGATTT
1 TTCTGATTT
48404 TTTATCTGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 2 0.07
24 24 0.89
25 1 0.04
ACGTcount: A:0.23, C:0.14, G:0.14, T:0.49
Consensus pattern (25 bp):
TTCTGATTTCACGACTTGAATTATG
Found at i:48420 original size:24 final size:24
Alignment explanation
Indices: 48386--48456 Score: 88
Period size: 24 Copynumber: 3.0 Consensus size: 24
48376 ATACATTACT
* *
48386 TGAATTATGTTCTGATTTTTTATC
1 TGAATTCTGTTCTGATTTTTGATC
* *
48410 TGGATTCTGTTCTGATATTTGATC
1 TGAATTCTGTTCTGATTTTTGATC
* *
48434 TGAATTCTGTTTTGATTTCTGAT
1 TGAATTCTGTTCTGATTTTTGAT
48457 ATCTCCGTTT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.18, C:0.10, G:0.17, T:0.55
Consensus pattern (24 bp):
TGAATTCTGTTCTGATTTTTGATC
Found at i:55035 original size:26 final size:26
Alignment explanation
Indices: 54999--55052 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
54989 TCACGGAATG
54999 TAAGATTACCAGTGGGAATAAAAGAT
1 TAAGATTACCAGTGGGAATAAAAGAT
55025 TAAGATTACCAGTGGGAATAAAAGAT
1 TAAGATTACCAGTGGGAATAAAAGAT
55051 TA
1 TA
55053 CCAGGGAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.46, C:0.07, G:0.22, T:0.24
Consensus pattern (26 bp):
TAAGATTACCAGTGGGAATAAAAGAT
Found at i:55061 original size:18 final size:19
Alignment explanation
Indices: 55026--55062 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
55016 ATAAAAGATT
55026 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
55046 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
55063 GGATTACTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:55157 original size:16 final size:16
Alignment explanation
Indices: 55136--55171 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
55126 TTGGTTAAAT
55136 GAATAAAAGATTATTG
1 GAATAAAAGATTATTG
55152 GAATAAAAGATTATTG
1 GAATAAAAGATTATTG
55168 GAAT
1 GAAT
55172 GTATATTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.19, T:0.31
Consensus pattern (16 bp):
GAATAAAAGATTATTG
Found at i:57958 original size:16 final size:17
Alignment explanation
Indices: 57924--57964 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
57914 CGATCTGAAA
57924 TTTCGGATATCCAA-AT
1 TTTCGGATATCCAATAT
* *
57940 TTTCGGATATCCGATTT
1 TTTCGGATATCCAATAT
57957 TTTCGGAT
1 TTTCGGAT
57965 CGGATACAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.44
Consensus pattern (17 bp):
TTTCGGATATCCAATAT
Found at i:58572 original size:17 final size:17
Alignment explanation
Indices: 58550--58640 Score: 85
Period size: 17 Copynumber: 5.3 Consensus size: 17
58540 CGATTTTGAG
*
58550 CTCGATTTAAGCTCGAA
1 CTCGATTCAAGCTCGAA
58567 CTCGATTCAAGCTCGAA
1 CTCGATTCAAGCTCGAA
* * * * *
58584 CTCAAACTCGAA-TTTGAG
1 CTC-GATTC-AAGCTCGAA
58602 CTCGATTCAAGCTCGAA
1 CTCGATTCAAGCTCGAA
* *
58619 TTCGATTCAAACTCGAA
1 CTCGATTCAAGCTCGAA
58636 CTCGA
1 CTCGA
58641 ATTTGAACCT
Statistics
Matches: 57, Mismatches: 14, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
16 2 0.04
17 44 0.77
18 9 0.16
19 2 0.04
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.26
Consensus pattern (17 bp):
CTCGATTCAAGCTCGAA
Found at i:58603 original size:52 final size:52
Alignment explanation
Indices: 58514--58638 Score: 169
Period size: 52 Copynumber: 2.4 Consensus size: 52
58504 AATTCAGGAG
* * * * * *
58514 CTCGATTGAAGCTCAAGACTCGAGCTCGATTTTGAGCTCGATTTAAGCTCGAA
1 CTCGATTCAAGCTCGA-ACTCAAACTCGAATTTGAGCTCGATTCAAGCTCGAA
58567 CTCGATTCAAGCTCGAACTCAAACTCGAATTTGAGCTCGATTCAAGCTCGAA
1 CTCGATTCAAGCTCGAACTCAAACTCGAATTTGAGCTCGATTCAAGCTCGAA
* *
58619 TTCGATTCAAACTCGAACTC
1 CTCGATTCAAGCTCGAACTC
58639 GAATTTGAAC
Statistics
Matches: 64, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
52 50 0.78
53 14 0.22
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (52 bp):
CTCGATTCAAGCTCGAACTCAAACTCGAATTTGAGCTCGATTCAAGCTCGAA
Found at i:58605 original size:12 final size:12
Alignment explanation
Indices: 58567--58621 Score: 60
Period size: 12 Copynumber: 4.8 Consensus size: 12
58557 TAAGCTCGAA
58567 CTCG-ATTCAAG
1 CTCGAATTCAAG
* *
58578 CTCGAACTCAAA
1 CTCGAATTCAAG
**
58590 CTCGAATTTGAG
1 CTCGAATTCAAG
58602 CTCG-ATTCAAG
1 CTCGAATTCAAG
58613 CTCGAATTC
1 CTCGAATTC
58622 GATTCAAACT
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
11 13 0.38
12 21 0.62
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.27
Consensus pattern (12 bp):
CTCGAATTCAAG
Found at i:58611 original size:23 final size:24
Alignment explanation
Indices: 58576--58646 Score: 74
Period size: 23 Copynumber: 3.0 Consensus size: 24
58566 ACTCGATTCA
58576 AGCTCGAACTCAAACTCGAATTTG
1 AGCTCGAACTCAAACTCGAATTTG
* * *
58600 AGCTCG-ATTCAAGCTCGAATTCG
1 AGCTCGAACTCAAACTCGAATTTG
* * *
58623 A-TTCAAACTCGAACTCGAATTTG
1 AGCTCGAACTCAAACTCGAATTTG
58646 A
1 A
58647 ACCTACAAAA
Statistics
Matches: 37, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
22 2 0.05
23 29 0.78
24 6 0.16
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (24 bp):
AGCTCGAACTCAAACTCGAATTTG
Found at i:59429 original size:2 final size:2
Alignment explanation
Indices: 59422--59453 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
59412 TGAAAAAGAA
*
59422 AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
59454 TAAATTAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:60706 original size:7 final size:7
Alignment explanation
Indices: 60694--60777 Score: 105
Period size: 7 Copynumber: 12.0 Consensus size: 7
60684 ATTTGTGTAT
60694 AACCCTA
1 AACCCTA
60701 AACCCTA
1 AACCCTA
60708 AACCCTA
1 AACCCTA
*
60715 AACCATA
1 AACCCTA
**
60722 AATTCTA
1 AACCCTA
*
60729 AACCTTA
1 AACCCTA
*
60736 AACCTTA
1 AACCCTA
**
60743 AACTATA
1 AACCCTA
60750 AACCCTA
1 AACCCTA
60757 AACCCTA
1 AACCCTA
60764 AACCCTA
1 AACCCTA
60771 AACCCTA
1 AACCCTA
60778 TCACACAATT
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 66 1.00
ACGTcount: A:0.45, C:0.35, G:0.00, T:0.20
Consensus pattern (7 bp):
AACCCTA
Found at i:60873 original size:14 final size:14
Alignment explanation
Indices: 60854--60883 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
60844 TATAATTATC
*
60854 AATAATGTATTTTT
1 AATAATGTAATTTT
60868 AATAATGTAATTTT
1 AATAATGTAATTTT
60882 AA
1 AA
60884 AAAATCTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
AATAATGTAATTTT
Found at i:64831 original size:17 final size:16
Alignment explanation
Indices: 64810--64871 Score: 63
Period size: 16 Copynumber: 3.9 Consensus size: 16
64800 ATATTCAACA
*
64810 ATTTTTCATATTTTAT
1 ATTTTTTATATTTTAT
* **
64826 ATTTTTTAGTAATTTGG
1 ATTTTTTA-TATTTTAT
64843 ATTTTTTATATTTTAT
1 ATTTTTTATATTTTAT
*
64859 AGTTTTTAT-TTTT
1 ATTTTTTATATTTT
64872 TTTATAAAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
15 4 0.11
16 20 0.54
17 13 0.35
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.69
Consensus pattern (16 bp):
ATTTTTTATATTTTAT
Found at i:65075 original size:29 final size:28
Alignment explanation
Indices: 65038--65107 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
65028 GTAACGAGCA
* *
65038 TAAAGTTAATTTAATTTACATATT-TTTTT
1 TAAATTTAATTTAATTTA-AT-TTAATTTT
65067 TAAATTTAATTTAATTTAATTTAATTTT
1 TAAATTTAATTTAATTTAATTTAATTTT
*
65095 TATATTTAATTTA
1 TAAATTTAATTTA
65108 TATAAATCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.05
28 18 0.49
29 17 0.46
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (28 bp):
TAAATTTAATTTAATTTAATTTAATTTT
Found at i:65084 original size:10 final size:10
Alignment explanation
Indices: 65069--65107 Score: 51
Period size: 10 Copynumber: 3.6 Consensus size: 10
65059 ATTTTTTTTA
65069 AATTTAATTT
1 AATTTAATTT
65079 AATTTAATTT
1 AATTTAATTT
65089 AATTTTTATATTT
1 AA--TTTA-ATTT
65102 AATTTA
1 AATTTA
65108 TATAAATCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
10 12 0.46
11 4 0.15
12 4 0.15
13 6 0.23
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
AATTTAATTT
Found at i:65103 original size:34 final size:33
Alignment explanation
Indices: 65043--65107 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 33
65033 GAGCATAAAG
65043 TTAATTTAATTTACATATTTTTTTTAAATTTAAT
1 TTAATTTAATTTACATATTTTTTTT-AATTTAAT
65077 TTAATTTAATTTA-AT-TTTTATATTTAATTTA
1 TTAATTTAATTTACATATTTT-T-TTTAATTTA
65108 TATAAATCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
32 4 0.14
33 9 0.31
34 16 0.55
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (33 bp):
TTAATTTAATTTACATATTTTTTTTAATTTAAT
Found at i:65438 original size:28 final size:27
Alignment explanation
Indices: 65394--65451 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 27
65384 GAATTGCGTT
* *
65394 ATATTATTCACATAATAAATAAAAGGA
1 ATATTATTCAAAAAATAAATAAAAGGA
65421 ATATTAATTCAAAAAATAAATAAAAGGA
1 ATATT-ATTCAAAAAATAAATAAAAGGA
65449 ATA
1 ATA
65452 CAATATTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
27 5 0.18
28 23 0.82
ACGTcount: A:0.60, C:0.05, G:0.07, T:0.28
Consensus pattern (27 bp):
ATATTATTCAAAAAATAAATAAAAGGA
Found at i:66450 original size:35 final size:35
Alignment explanation
Indices: 66377--66451 Score: 123
Period size: 35 Copynumber: 2.1 Consensus size: 35
66367 CGTCACTAAC
**
66377 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGGTA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
*
66412 AGTAAGGCCCTGAGCACACAGCCGAGGAACCTCCA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
66447 AGTAA
1 AGTAA
66452 TCTTCCTCCA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.33, C:0.29, G:0.28, T:0.09
Consensus pattern (35 bp):
AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
Found at i:66556 original size:24 final size:24
Alignment explanation
Indices: 66529--66603 Score: 116
Period size: 24 Copynumber: 3.2 Consensus size: 24
66519 CATAATTCAA
*
66529 GTCAAGTATCATATCAGAATCCAG
1 GTCAAGTATCAGATCAGAATCCAG
* *
66553 GTCATGTATCAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAATCCAG
66577 GTCAA-TATCAGATCAGAATCCAG
1 GTCAAGTATCAGATCAGAATCCAG
66600 GTCA
1 GTCA
66604 GGATCATAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
23 21 0.46
24 25 0.54
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.25
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAG
Found at i:66609 original size:23 final size:23
Alignment explanation
Indices: 66533--66609 Score: 109
Period size: 23 Copynumber: 3.3 Consensus size: 23
66523 ATTCAAGTCA
*
66533 AGTATCATATCAGAATCCAGGTC
1 AGTATCAGATCAGAATCCAGGTC
*
66556 ATGTATCAGATCAGAATCCATGTC
1 A-GTATCAGATCAGAATCCAGGTC
*
66580 AATATCAGATCAGAATCCAGGTC
1 AGTATCAGATCAGAATCCAGGTC
*
66603 AGGATCA
1 AGTATCA
66610 TAATAGAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
23 26 0.55
24 21 0.45
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (23 bp):
AGTATCAGATCAGAATCCAGGTC
Found at i:66636 original size:47 final size:47
Alignment explanation
Indices: 66512--66625 Score: 124
Period size: 47 Copynumber: 2.4 Consensus size: 47
66502 TATATCAAAA
* * * * *
66512 ATCAAAACATAATTCAAGTCAAGTATCATATCAGAATCCAGGTCATGT
1 ATCAAATCAGAATCCAAGTCAA-TATCAGATCAGAATCCAGGTCATGG
* *
66560 ATCAGATCAGAATCCATGTCAATATCAGATCAGAATCCAGGTCA-GG
1 ATCAAATCAGAATCCAAGTCAATATCAGATCAGAATCCAGGTCATGG
*
66606 ATCATAAT-AGAATTCAAGTC
1 ATCA-AATCAGAATCCAAGTC
66626 GGAAATCAGA
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
46 15 0.27
47 23 0.42
48 17 0.31
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.25
Consensus pattern (47 bp):
ATCAAATCAGAATCCAAGTCAATATCAGATCAGAATCCAGGTCATGG
Found at i:67783 original size:18 final size:18
Alignment explanation
Indices: 67760--67795 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
67750 CTTCCATCCG
*
67760 ATCTTATTATTTAATTCA
1 ATCTTATCATTTAATTCA
*
67778 ATCTTATCATTTACTTCA
1 ATCTTATCATTTAATTCA
67796 GTCATTCGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (18 bp):
ATCTTATCATTTAATTCA
Found at i:69098 original size:7 final size:7
Alignment explanation
Indices: 69086--69125 Score: 53
Period size: 7 Copynumber: 5.4 Consensus size: 7
69076 TGGTCAACTC
69086 CGGTCAA
1 CGGTCAA
69093 CGGTCAA
1 CGGTCAA
69100 CGGGTCAA
1 C-GGTCAA
*
69108 CAGTCAA
1 CGGTCAA
69115 CGGGTCAA
1 C-GGTCAA
69123 CGG
1 CGG
69126 GTCGGGTCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
7 16 0.55
8 13 0.45
ACGTcount: A:0.28, C:0.28, G:0.33, T:0.12
Consensus pattern (7 bp):
CGGTCAA
Found at i:69107 original size:8 final size:8
Alignment explanation
Indices: 69087--69141 Score: 66
Period size: 8 Copynumber: 7.5 Consensus size: 8
69077 GGTCAACTCC
69087 GGTCAAC-
1 GGTCAACG
69094 GGTCAACG
1 GGTCAACG
69102 GGTCAAC-
1 GGTCAACG
*
69109 AGTCAACG
1 GGTCAACG
69117 GGTCAACG
1 GGTCAACG
69125 GGT---CG
1 GGTCAACG
69130 GGTCAACG
1 GGTCAACG
69138 GGTC
1 GGTC
69142 GGGTCGGGTC
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
5 5 0.12
7 13 0.32
8 23 0.56
ACGTcount: A:0.24, C:0.25, G:0.36, T:0.15
Consensus pattern (8 bp):
GGTCAACG
Found at i:69107 original size:15 final size:15
Alignment explanation
Indices: 69087--69125 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
69077 GGTCAACTCC
69087 GGTCAACGGTCAACG
1 GGTCAACGGTCAACG
*
69102 GGTCAACAGTCAACG
1 GGTCAACGGTCAACG
69117 GGTCAACGG
1 GGTCAACGG
69126 GTCGGGTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.28, C:0.26, G:0.33, T:0.13
Consensus pattern (15 bp):
GGTCAACGGTCAACG
Found at i:69133 original size:13 final size:13
Alignment explanation
Indices: 69115--69190 Score: 80
Period size: 13 Copynumber: 5.5 Consensus size: 13
69105 CAACAGTCAA
69115 CGGGTCAACGGGT
1 CGGGTCAACGGGT
69128 CGGGTCAACGGGTCGGGT
1 CGGGTCAA-----CGGGT
*
69146 CGGGTCAACTGGT
1 CGGGTCAACGGGT
*
69159 CGGGTAAACGGGT
1 CGGGTCAACGGGT
*
69172 CGGGTAAACGGGT
1 CGGGTCAACGGGT
69185 CGGGTC
1 CGGGTC
69191 GGGTCGGGCT
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
13 41 0.76
18 13 0.24
ACGTcount: A:0.16, C:0.21, G:0.46, T:0.17
Consensus pattern (13 bp):
CGGGTCAACGGGT
Found at i:69146 original size:18 final size:18
Alignment explanation
Indices: 69123--69163 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
69113 AACGGGTCAA
69123 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
*
69141 CGGGTCGGGTCAACTGGT
1 CGGGTCGGGTCAACGGGT
69159 CGGGT
1 CGGGT
69164 AAACGGGTCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.10, C:0.22, G:0.49, T:0.20
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Found at i:69153 original size:31 final size:31
Alignment explanation
Indices: 69115--69176 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
69105 CAACAGTCAA
*
69115 CGGGTCAACGGGTCGGGTCAACGGGTCGGGT
1 CGGGTCAACGGGTCGGGTAAACGGGTCGGGT
*
69146 CGGGTCAACTGGTCGGGTAAACGGGTCGGGT
1 CGGGTCAACGGGTCGGGTAAACGGGTCGGGT
69177 AAACGGGTCG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.15, C:0.21, G:0.47, T:0.18
Consensus pattern (31 bp):
CGGGTCAACGGGTCGGGTAAACGGGTCGGGT
Found at i:71390 original size:24 final size:24
Alignment explanation
Indices: 71363--71437 Score: 116
Period size: 24 Copynumber: 3.2 Consensus size: 24
71353 CATAATTCAA
*
71363 GTCAAGTATCATATCAGAATCCAG
1 GTCAAGTATCAGATCAGAATCCAG
* *
71387 GTCATGTATCAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAATCCAG
71411 GTCAA-TATCAGATCAGAATCCAG
1 GTCAAGTATCAGATCAGAATCCAG
71434 GTCA
1 GTCA
71438 GGATCATAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
23 21 0.46
24 25 0.54
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.25
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAG
Found at i:71443 original size:23 final size:23
Alignment explanation
Indices: 71367--71443 Score: 109
Period size: 23 Copynumber: 3.3 Consensus size: 23
71357 ATTCAAGTCA
*
71367 AGTATCATATCAGAATCCAGGTC
1 AGTATCAGATCAGAATCCAGGTC
*
71390 ATGTATCAGATCAGAATCCATGTC
1 A-GTATCAGATCAGAATCCAGGTC
*
71414 AATATCAGATCAGAATCCAGGTC
1 AGTATCAGATCAGAATCCAGGTC
*
71437 AGGATCA
1 AGTATCA
71444 TAATAAATTC
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
23 26 0.55
24 21 0.45
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (23 bp):
AGTATCAGATCAGAATCCAGGTC
Found at i:72606 original size:18 final size:18
Alignment explanation
Indices: 72585--72620 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
72575 CTTCCATCCG
*
72585 ATCTTATTATTTAATTCA
1 ATCTTATCATTTAATTCA
*
72603 ATCTTATCATTTACTTCA
1 ATCTTATCATTTAATTCA
72621 GTCATTTCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (18 bp):
ATCTTATCATTTAATTCA
Found at i:73914 original size:7 final size:7
Alignment explanation
Indices: 73902--73941 Score: 53
Period size: 7 Copynumber: 5.4 Consensus size: 7
73892 ATGGTCACTC
73902 CGGTCAA
1 CGGTCAA
73909 CGGTCAA
1 CGGTCAA
73916 CGGGTCAA
1 C-GGTCAA
*
73924 CAGTCAA
1 CGGTCAA
73931 CGGGTCAA
1 C-GGTCAA
73939 CGG
1 CGG
73942 GTCGGGTCAC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
7 16 0.55
8 13 0.45
ACGTcount: A:0.28, C:0.28, G:0.33, T:0.12
Consensus pattern (7 bp):
CGGTCAA
Found at i:73923 original size:8 final size:8
Alignment explanation
Indices: 73903--73944 Score: 61
Period size: 8 Copynumber: 5.5 Consensus size: 8
73893 TGGTCACTCC
73903 GGTCAAC-
1 GGTCAACG
73910 GGTCAACG
1 GGTCAACG
73918 GGTCAAC-
1 GGTCAACG
*
73925 AGTCAACG
1 GGTCAACG
73933 GGTCAACG
1 GGTCAACG
73941 GGTC
1 GGTC
73945 GGGTCACGGG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
7 13 0.42
8 18 0.58
ACGTcount: A:0.26, C:0.26, G:0.33, T:0.14
Consensus pattern (8 bp):
GGTCAACG
Found at i:73923 original size:15 final size:15
Alignment explanation
Indices: 73903--73941 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
73893 TGGTCACTCC
73903 GGTCAACGGTCAACG
1 GGTCAACGGTCAACG
*
73918 GGTCAACAGTCAACG
1 GGTCAACGGTCAACG
73933 GGTCAACGG
1 GGTCAACGG
73942 GTCGGGTCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.28, C:0.26, G:0.33, T:0.13
Consensus pattern (15 bp):
GGTCAACGGTCAACG
Found at i:73955 original size:12 final size:13
Alignment explanation
Indices: 73931--74004 Score: 69
Period size: 13 Copynumber: 5.5 Consensus size: 13
73921 CAACAGTCAA
73931 CGGGTCAACGGGT
1 CGGGTCAACGGGT
73944 CGGGTC-ACGGGT
1 CGGGTCAACGGGT
* *
73956 CGGGTCGGGTCACTGGT
1 CGGGTC----AACGGGT
*
73973 CGGGTAAACGGGT
1 CGGGTCAACGGGT
*
73986 CGGGTAAACGGGT
1 CGGGTCAACGGGT
73999 CGGGTC
1 CGGGTC
74005 GGGTCGGCTA
Statistics
Matches: 51, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
12 12 0.24
13 29 0.57
17 10 0.20
ACGTcount: A:0.14, C:0.22, G:0.47, T:0.18
Consensus pattern (13 bp):
CGGGTCAACGGGT
Found at i:73961 original size:17 final size:17
Alignment explanation
Indices: 73939--73977 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
73929 AACGGGTCAA
73939 CGGGTCGGGTCACGGGT
1 CGGGTCGGGTCACGGGT
*
73956 CGGGTCGGGTCACTGGT
1 CGGGTCGGGTCACGGGT
73973 CGGGT
1 CGGGT
73978 AAACGGGTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.05, C:0.23, G:0.51, T:0.21
Consensus pattern (17 bp):
CGGGTCGGGTCACGGGT
Found at i:73965 original size:30 final size:30
Alignment explanation
Indices: 73931--73990 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
73921 CAACAGTCAA
*
73931 CGGGTCAACGGGTCGGGT-CACGGGTCGGGT
1 CGGGTC-ACGGGTCGGGTAAACGGGTCGGGT
*
73961 CGGGTCACTGGTCGGGTAAACGGGTCGGGT
1 CGGGTCACGGGTCGGGTAAACGGGTCGGGT
73991 AAACGGGTCG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 10 0.37
30 17 0.63
ACGTcount: A:0.12, C:0.22, G:0.48, T:0.18
Consensus pattern (30 bp):
CGGGTCACGGGTCGGGTAAACGGGTCGGGT
Found at i:76076 original size:34 final size:35
Alignment explanation
Indices: 76004--76077 Score: 114
Period size: 34 Copynumber: 2.1 Consensus size: 35
75994 CGTCACTAAC
**
76004 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGGTA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
*
76039 AGTAAGG-CCTGAGCACACAGCCGAGGAACCTCCA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
76073 AGTAA
1 AGTAA
76078 TCTTCCTCCA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
34 29 0.81
35 7 0.19
ACGTcount: A:0.34, C:0.28, G:0.28, T:0.09
Consensus pattern (35 bp):
AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
Found at i:76180 original size:24 final size:24
Alignment explanation
Indices: 76153--76227 Score: 116
Period size: 24 Copynumber: 3.2 Consensus size: 24
76143 CATAATTCAA
*
76153 GTCAAGTATCATATCAGAATCCAG
1 GTCAAGTATCAGATCAGAATCCAG
* *
76177 GTCATGTATCAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAATCCAG
76201 GTCAA-TATCAGATCAGAATCCAG
1 GTCAAGTATCAGATCAGAATCCAG
76224 GTCA
1 GTCA
76228 GGATCATAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
23 21 0.46
24 25 0.54
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.25
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAG
Found at i:76233 original size:23 final size:23
Alignment explanation
Indices: 76157--76233 Score: 109
Period size: 23 Copynumber: 3.3 Consensus size: 23
76147 ATTCAAGTCA
*
76157 AGTATCATATCAGAATCCAGGTC
1 AGTATCAGATCAGAATCCAGGTC
*
76180 ATGTATCAGATCAGAATCCATGTC
1 A-GTATCAGATCAGAATCCAGGTC
*
76204 AATATCAGATCAGAATCCAGGTC
1 AGTATCAGATCAGAATCCAGGTC
*
76227 AGGATCA
1 AGTATCA
76234 TAATAGAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
23 26 0.55
24 21 0.45
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (23 bp):
AGTATCAGATCAGAATCCAGGTC
Found at i:76260 original size:47 final size:47
Alignment explanation
Indices: 76137--76249 Score: 124
Period size: 47 Copynumber: 2.4 Consensus size: 47
76127 TATATCAAAA
* * * *
76137 ATCAAA-CATAATTCAAGTCAAGTATCATATCAGAATCCAGGTCATGT
1 ATCAAATCAGAATCCAAGTCAA-TATCAGATCAGAATCCAGGTCATGG
* *
76184 ATCAGATCAGAATCCATGTCAATATCAGATCAGAATCCAGGTCA-GG
1 ATCAAATCAGAATCCAAGTCAATATCAGATCAGAATCCAGGTCATGG
*
76230 ATCATAAT-AGAATTCAAGTC
1 ATCA-AATCAGAATCCAAGTC
76250 GGAAATCAGA
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
46 15 0.27
47 28 0.51
48 12 0.22
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.26
Consensus pattern (47 bp):
ATCAAATCAGAATCCAAGTCAATATCAGATCAGAATCCAGGTCATGG
Done.