Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007120.1 Hibiscus syriacus cultivar Beakdansim tig00018605_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: 55951
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.31
Found at i:7476 original size:3 final size:3
Alignment explanation
Indices: 7468--7497 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
7458 TTTGTCCAAT
7468 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
7498 AATAATTACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:10838 original size:6 final size:6
Alignment explanation
Indices: 10796--10834 Score: 60
Period size: 6 Copynumber: 6.3 Consensus size: 6
10786 ATTAACACCT
*
10796 TTTGCA TTTGCA TTTGCA TTTGGCA TTTGCA TTCGCA TT
1 TTTGCA TTTGCA TTTGCA TTT-GCA TTTGCA TTTGCA TT
10835 CGCACTGCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
6 25 0.81
7 6 0.19
ACGTcount: A:0.15, C:0.18, G:0.18, T:0.49
Consensus pattern (6 bp):
TTTGCA
Found at i:19400 original size:19 final size:18
Alignment explanation
Indices: 19353--19412 Score: 79
Period size: 19 Copynumber: 3.4 Consensus size: 18
19343 TAATAAAATT
19353 TTAAAAA-CCTAAACCA-
1 TTAAAAACCCTAAACCAC
19369 TTAAAAACCCTAAACCAC
1 TTAAAAACCCTAAACCAC
* *
19387 TTAAAAGCCCCTAAATCAC
1 TTAAAA-ACCCTAAACCAC
19406 TTAAAAA
1 TTAAAAA
19413 AACCCAAACC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
16 7 0.18
17 9 0.24
18 6 0.16
19 16 0.42
ACGTcount: A:0.52, C:0.27, G:0.02, T:0.20
Consensus pattern (18 bp):
TTAAAAACCCTAAACCAC
Found at i:23648 original size:2 final size:2
Alignment explanation
Indices: 23641--23680 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
23631 TATATCAGTC
23641 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23681 TTGTTTAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24605 original size:26 final size:26
Alignment explanation
Indices: 24550--24598 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
24540 TTCTTTCAAA
*
24550 TATTTTATTACTTATTATTTTTATAT
1 TATTTTATTACATATTATTTTTATAT
*
24576 TATTTTATTA-ATATTTTTTTTAT
1 TATTTTATTACATATTATTTTTAT
24599 TTTTATTCAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (26 bp):
TATTTTATTACATATTATTTTTATAT
Found at i:26204 original size:12 final size:12
Alignment explanation
Indices: 26187--26214 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
26177 ACATTCACAT
26187 ATTTACATTTGC
1 ATTTACATTTGC
26199 ATTTACATTTGC
1 ATTTACATTTGC
26211 ATTT
1 ATTT
26215 TTTTTACGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.14, G:0.07, T:0.54
Consensus pattern (12 bp):
ATTTACATTTGC
Found at i:30480 original size:114 final size:114
Alignment explanation
Indices: 30280--30499 Score: 370
Period size: 114 Copynumber: 1.9 Consensus size: 114
30270 CACGTTCTCG
* *
30280 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATCTGATTT
1 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATATGATTC
* *
30345 GGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTGCTCA
66 GGTAAGAACCCCAAAACCAATCATTGGAATTGAAAGATGAATTTGCTCA
*
30394 TAGTAGAAATAAGGAGACCCAATAGCATCTTCT-AGAAGTGTTCTTTGAGTTATCTGATATGGTT
1 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGA-AAGTGTTCTTTGAGTTATCTGATATGATT
*
30458 CGGTAAGAACCCCAGAACCAATCATTGGAATTGAAAGATGAA
65 CGGTAAGAACCCCAAAACCAATCATTGGAATTGAAAGATGAA
30500 CTGCATGATC
Statistics
Matches: 99, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
113 1 0.01
114 98 0.99
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (114 bp):
TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATATGATTC
GGTAAGAACCCCAAAACCAATCATTGGAATTGAAAGATGAATTTGCTCA
Found at i:33039 original size:22 final size:22
Alignment explanation
Indices: 33013--33086 Score: 139
Period size: 22 Copynumber: 3.4 Consensus size: 22
33003 TACACTCTTC
33013 AAAGATGATAGATTCTCTTTTT
1 AAAGATGATAGATTCTCTTTTT
33035 AAAGATGATAGATTCTCTTTTT
1 AAAGATGATAGATTCTCTTTTT
*
33057 AAAGATGATAGATTCTCTTTTC
1 AAAGATGATAGATTCTCTTTTT
33079 AAAGATGA
1 AAAGATGA
33087 AAACTTTATT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.41
Consensus pattern (22 bp):
AAAGATGATAGATTCTCTTTTT
Found at i:33890 original size:76 final size:76
Alignment explanation
Indices: 33764--34013 Score: 392
Period size: 76 Copynumber: 3.3 Consensus size: 76
33754 ACTATTTCCC
*
33764 ACATCTGTAAGTCCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 ACATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
*
33829 AAGCCTTAGAA
66 AAGCCTTAGAG
33840 ACATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 ACATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
*
33905 AAGCCTTAGGG
66 AAGCCTTAGAG
* * * *
33916 TCATCTATAAGTCCTATAGTGCATGATGTTTCCAAAATGCCTTCGGGAGCTTTTTGATGTTTTCA
1 ACATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
* *
33981 AAACCTTCGAG
66 AAGCCTTAGAG
* * *
33992 TCAGCTGTAAGCCCTACAGTGC
1 ACATCTGTAAGTCCTACAGTGC
34014 GGAATATTTT
Statistics
Matches: 160, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
76 160 1.00
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (76 bp):
ACATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
AAGCCTTAGAG
Found at i:34093 original size:17 final size:17
Alignment explanation
Indices: 34048--34096 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
34038 CCAGGTAGAG
34048 TTCATAATGAGAAG-AA
1 TTCATAATGAGAAGAAA
* *
34064 CTCAT-CTGAAGAAGAAA
1 TTCATAATG-AGAAGAAA
34081 TTCATAATGAGAAGAA
1 TTCATAATGAGAAGAA
34097 TTTGTTCAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
15 2 0.08
16 9 0.35
17 13 0.50
18 2 0.08
ACGTcount: A:0.49, C:0.10, G:0.18, T:0.22
Consensus pattern (17 bp):
TTCATAATGAGAAGAAA
Found at i:34098 original size:16 final size:16
Alignment explanation
Indices: 34048--34098 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
34038 CCAGGTAGAG
34048 TTCATAATGAGAAGAA
1 TTCATAATGAGAAGAA
* *
34064 CTCAT-CTGAAGAAGAAA
1 TTCATAATG-AGAAG-AA
34081 TTCATAATGAGAAGAA
1 TTCATAATGAGAAGAA
34097 TT
1 TT
34099 TGTTCAACCT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
15 2 0.07
16 13 0.46
17 11 0.39
18 2 0.07
ACGTcount: A:0.47, C:0.10, G:0.18, T:0.25
Consensus pattern (16 bp):
TTCATAATGAGAAGAA
Found at i:34204 original size:16 final size:16
Alignment explanation
Indices: 34154--34204 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
34144 CCAGGTAGAG
34154 TTCATAATGAGAAGAA
1 TTCATAATGAGAAGAA
* * *
34170 CTCGT-CTGAAGAAGAAA
1 TTCATAATG-AGAAG-AA
34187 TTCATAATGAGAAGAA
1 TTCATAATGAGAAGAA
34203 TT
1 TT
34205 TGTTCAACCT
Statistics
Matches: 26, Mismatches: 6, Indels: 6
0.68 0.16 0.16
Matches are distributed among these distances:
15 2 0.08
16 12 0.46
17 10 0.38
18 2 0.08
ACGTcount: A:0.45, C:0.10, G:0.20, T:0.25
Consensus pattern (16 bp):
TTCATAATGAGAAGAA
Found at i:34223 original size:106 final size:106
Alignment explanation
Indices: 34038--34611 Score: 714
Period size: 113 Copynumber: 5.4 Consensus size: 106
34028 AAAAGCATTA
34038 CCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAATTCATAATGAGAAGAATTTGTT
1 CCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAATTCATAATGAGAAGAATTTGTT
34103 CAACCTTTTGCTTAAATTCATCACTTGATGGATCAACTTTT
66 CAACCTTTTGCTTAAATTCATCACTTGATGGATCAACTTTT
*
34144 CCAGGTAGAGTTCATAATGAGAAGAACTCGTCTGAAGAAGAAATTCATAATGAGAAGAATTTGTT
1 CCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAATTCATAATGAGAAGAATTTGTT
34209 CAACCTTTTGCTTAAATTCATCACTTGATGGATCAACTTTT
66 CAACCTTTTGCTTAAATTCATCACTTGATGGATCAACTTTT
*
34250 CCA--TAGAAAGTTCATAATGAGAAGAACTCATCT---GAAG--------AA-G-GAATAATTTG
1 CCAGGTAG--AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAATTCATAATGAGAAGAATTTG
* **
34300 TACAAATTTTTGCTTAAATTCATCACTTGATGGATCAACTTTT
64 TTCAACCTTTTGCTTAAATTCATCACTTGATGGATCAACTTTT
* *
34343 CCAGAG-AAAGTTCACAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAG
1 CCAG-GTAGAGTTCATAATGAGAAGAACTCATCT---GAA-GAAG-A-AA-TTCATAATGAGAAG
* * * * * ** *
34407 AACTTGTACAACTTTTTGCTTAAATTCATCACTCGATGGATCAGCAGTG
58 AATTTGTTCAACCTTTTGCTTAAATTCATCACTTGATGGATCAACTTTT
*
34456 CCAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAATTCATAATGAGAAGA
1 CCAGGTAGAGTTCATAATGAGAAGAACTCATCT------G-AAGAAGAAATTCATAATGAGAAGA
34521 ATTTGTTCAACCTTTTGCTTAAATTCATCACTTGATGGATCAACTTTT
59 ATTTGTTCAACCTTTTGCTTAAATTCATCACTTGATGGATCAACTTTT
*
34569 CCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAA
1 CCAG-GTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAA
34612 GAAGAAGTTC
Statistics
Matches: 408, Mismatches: 29, Indels: 62
0.82 0.06 0.12
Matches are distributed among these distances:
93 76 0.19
94 1 0.00
95 3 0.01
100 4 0.01
103 4 0.01
104 3 0.01
106 141 0.35
107 1 0.00
111 2 0.00
112 1 0.00
113 159 0.39
114 2 0.00
115 1 0.00
116 8 0.02
117 2 0.00
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (106 bp):
CCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAATTCATAATGAGAAGAATTTGTT
CAACCTTTTGCTTAAATTCATCACTTGATGGATCAACTTTT
Found at i:34336 original size:93 final size:93
Alignment explanation
Indices: 34214--34385 Score: 326
Period size: 93 Copynumber: 1.8 Consensus size: 93
34204 TTGTTCAACC
* *
34214 TTTTGCTTAAATTCATCACTTGATGGATCAACTTTTCCATAGAAAGTTCATAATGAGAAGAACTC
1 TTTTGCTTAAATTCATCACTTGATGGATCAACTTTTCCAGAGAAAGTTCACAATGAGAAGAACTC
34279 ATCTGAAGAAGGAATAATTTGTACAAAT
66 ATCTGAAGAAGGAATAATTTGTACAAAT
34307 TTTTGCTTAAATTCATCACTTGATGGATCAACTTTTCCAGAGAAAGTTCACAATGAGAAGAACTC
1 TTTTGCTTAAATTCATCACTTGATGGATCAACTTTTCCAGAGAAAGTTCACAATGAGAAGAACTC
34372 ATCTGAAGAAGGAA
66 ATCTGAAGAAGGAA
34386 GAAGAAGTTC
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 77 1.00
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.31
Consensus pattern (93 bp):
TTTTGCTTAAATTCATCACTTGATGGATCAACTTTTCCAGAGAAAGTTCACAATGAGAAGAACTC
ATCTGAAGAAGGAATAATTTGTACAAAT
Found at i:34664 original size:113 final size:113
Alignment explanation
Indices: 34307--34651 Score: 546
Period size: 113 Copynumber: 3.1 Consensus size: 113
34297 TTGTACAAAT
*
34307 TTTTGCTTAAATTCATCACTTGATGGATCAACTTTTCCAGAGAAAGTTCACAATGAGAAGAACTC
1 TTTTGCTTAAATTCATCACTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTC
* * *
34372 ATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTACAACT
66 ATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACC
* * ** * ** *
34420 TTTTGCTTAAATTCATCACTCGATGGATCAGCAGTGCCAGTTAGAGTTCATAATGAGAAGAACTC
1 TTTTGCTTAAATTCATCACTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTC
* *
34485 ATCTGAAGAAGAAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACC
66 ATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACC
34533 TTTTGCTTAAATTCATCACTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTC
1 TTTTGCTTAAATTCATCACTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTC
* *
34598 ATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGACC
66 ATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACC
34646 TTTTGC
1 TTTTGC
34652 ATGCCTCTAT
Statistics
Matches: 206, Mismatches: 26, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
113 206 1.00
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.28
Consensus pattern (113 bp):
TTTTGCTTAAATTCATCACTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTC
ATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACC
Found at i:34995 original size:16 final size:15
Alignment explanation
Indices: 34974--35015 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
34964 ATTTGCTTAC
34974 ATTATTTATTATTATT
1 ATTATTTATTA-TATT
*
34990 ATTATTATGTTATATT
1 ATTATT-TATTATATT
35006 A-TATTTATTA
1 ATTATTTATTA
35016 AATAATTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 4 0.17
15 4 0.17
16 11 0.48
17 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (15 bp):
ATTATTTATTATATT
Found at i:35093 original size:14 final size:15
Alignment explanation
Indices: 35068--35101 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
35058 AGCCCGATTA
35068 CAAACAAGACTGACC
1 CAAACAAGACTGACC
*
35083 CAAAC-AGACTGGCC
1 CAAACAAGACTGACC
35097 CAAAC
1 CAAAC
35102 CTAATAACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.44, C:0.35, G:0.15, T:0.06
Consensus pattern (15 bp):
CAAACAAGACTGACC
Found at i:36111 original size:2 final size:2
Alignment explanation
Indices: 36104--36131 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
36094 CCTTATCAAC
36104 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
36132 TTAGGGTAAA
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:36748 original size:17 final size:17
Alignment explanation
Indices: 36726--36763 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
36716 TCTTTTAATA
36726 TTAAGAAATAAGCTGTC
1 TTAAGAAATAAGCTGTC
*
36743 TTAAGAAATGAGCTGTC
1 TTAAGAAATAAGCTGTC
36760 TTAA
1 TTAA
36764 AGCACCTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (17 bp):
TTAAGAAATAAGCTGTC
Found at i:42725 original size:194 final size:191
Alignment explanation
Indices: 42382--42769 Score: 633
Period size: 194 Copynumber: 2.0 Consensus size: 191
42372 GGAAAGCTTC
*
42382 TTGATGACAGTCTTGGAGTTCCTTTAATCAGCACTAACAGAAGACCATAACCTGAGCAAAAAGTA
1 TTGATGACAGTCTTGGAGTCCCTTTAATCAGCACTAACAGAAGACCATAACCTGAGCAAAAAGTA
42447 TGGCATGCAACACAGCTGTGGCTTCAACTCCAAACGCTGTAGGTGCTTCATTTTCTTATGCATGC
66 TGGCATGCAACACAGCTGTGGCTTCAACTCCAAACGCTGTAGGTGCTTCATTTTCTTATGCATG-
42512 TCCCATTAGTAAGCCATTGAGTTTCCAGC-AAAATCCCTGACCATCTATTCTATTGTGATTGCG
130 --CCATTAGTAAGCCATTGAGTTTCCAGCAAAAATCCCTGACCATCTATTCTATTGTGATTGCG
42575 TTGATGACAGTCTTGGAGTCCCTTTAATCAGCACTAGACAGAAGACCATAACCTGAGC-AAAAGT
1 TTGATGACAGTCTTGGAGTCCCTTTAATCAGCACTA-ACAGAAGACCATAACCTGAGCAAAAAGT
42639 AATGGCATGCAACACAGCTGTGGCTTCAACTCCAAACGCTGAGGTAAGGTGCTTCA-TTTCTTTA
65 -ATGGCATGCAACACAGCTGTGGCTTCAACTCCAAACGCT---GT-AGGTGCTTCATTTTC-TTA
42703 TGCATG-C-TTAGTAAGCCCATTGAGTTTCCAGCAAAAATCCCTGACCATCTATTCTATTGTGAT
124 TGCATGCCATTAGTAAG-CCATTGAGTTTCCAGCAAAAATCCCTGACCATCTATTCTATTGTGAT
42766 TGCG
188 TGCG
42770 AGAAACTTGC
Statistics
Matches: 185, Mismatches: 1, Indels: 16
0.92 0.00 0.08
Matches are distributed among these distances:
193 49 0.26
194 77 0.42
195 34 0.18
197 6 0.03
198 19 0.10
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.29
Consensus pattern (191 bp):
TTGATGACAGTCTTGGAGTCCCTTTAATCAGCACTAACAGAAGACCATAACCTGAGCAAAAAGTA
TGGCATGCAACACAGCTGTGGCTTCAACTCCAAACGCTGTAGGTGCTTCATTTTCTTATGCATGC
CATTAGTAAGCCATTGAGTTTCCAGCAAAAATCCCTGACCATCTATTCTATTGTGATTGCG
Found at i:45471 original size:19 final size:19
Alignment explanation
Indices: 45435--45471 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
45425 TGAAAATGAT
*
45435 TTGATTTTGAAAGCCAAAG
1 TTGATTTTGAAAACCAAAG
*
45454 TTGATTTTGAAAATCAAA
1 TTGATTTTGAAAACCAAA
45472 ATGAAACTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.35
Consensus pattern (19 bp):
TTGATTTTGAAAACCAAAG
Done.