genome.fa.s9634.2.7.7.80.10.50.1000.29.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  17174986

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   

This is table  29  of  78  ( 9351 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6014438--6014487	18	2.7	19	84	9	68	26	0	0	74	0.83
6016705--6016759	16	3.4	16	82	9	60	47	9	1	41	1.46
6018204--6018241	17	2.2	18	90	4	60	0	18	2	78	0.86
6018217--6018288	11	6.3	11	82	10	83	1	22	0	76	0.86
6018217--6018288	22	3.1	22	82	13	92	1	22	0	76	0.86
6029668--6029719	24	2.1	25	82	10	63	7	21	3	67	1.32
6036237--6036291	16	3.6	15	78	11	58	49	5	1	43	1.36
6041038--6041096	24	2.5	24	91	2	93	33	25	22	18	1.96
6041087--6041165	23	3.4	23	81	6	88	40	25	21	12	1.88
6050436--6050481	20	2.3	20	88	0	65	19	10	39	30	1.86
6050447--6050490	20	2.2	20	83	0	52	20	11	40	27	1.86
6055211--6055237	2	13.5	2	100	0	54	51	0	0	48	1.00
6056026--6056057	14	2.2	15	94	5	57	40	18	12	28	1.87
6056199--6056256	27	2.1	29	84	12	77	46	0	0	53	1.00
6056422--6056493	27	2.7	26	77	12	74	51	2	1	44	1.24
6056573--6056619	22	2.1	23	88	4	69	53	0	2	44	1.12
6056581--6056641	22	2.8	22	73	14	54	52	0	1	45	1.10
6056834--6056915	42	2.0	42	85	4	112	47	15	15	20	1.82
6063596--6063677	42	2.0	41	85	2	110	34	20	21	23	1.97
6063273--6063958	259	2.6	259	90	0	1059	34	17	17	31	1.93
6063914--6063978	22	3.0	22	68	17	64	32	20	21	26	1.97
6063836--6064041	83	2.5	84	84	3	247	33	21	20	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6063884--6064041	42	3.8	42	82	3	176	35	21	21	21	1.96
6063588--6064300	342	2.1	343	90	1	1101	34	17	18	30	1.94
6063935--6064675	259	2.9	257	87	4	1063	34	16	17	32	1.92
6068708--6068754	2	23.5	2	100	0	94	48	0	0	51	1.00
6068758--6068815	28	2.1	28	90	6	91	36	10	25	27	1.89
6068960--6069039	23	3.4	23	87	1	115	16	23	23	36	1.94
6083348--6083387	21	2.0	20	90	5	62	35	12	22	30	1.91
6084023--6084047	2	12.5	2	100	0	50	48	0	0	52	1.00
6084051--6084104	28	1.9	28	84	0	72	38	7	24	29	1.82
6084267--6084312	24	1.9	24	95	0	83	21	30	26	21	1.99
6089804--6089856	23	2.3	23	83	0	70	20	22	18	37	1.94
6090251--6090334	33	2.6	33	83	3	100	29	2	16	51	1.57
6095164--6095241	33	2.5	31	82	4	84	29	5	16	48	1.68
6099412--6099470	21	2.8	21	82	12	59	57	0	5	37	1.21
6100975--6101009	2	17.5	2	100	0	70	51	0	0	48	1.00
6105276--6105616	22	15.4	22	82	8	408	48	9	0	42	1.38
6105276--6105616	44	7.7	44	85	5	449	48	9	0	42	1.38
6105276--6105616	66	5.1	65	85	7	463	48	9	0	42	1.38
6109122--6109154	11	3.2	11	87	12	52	27	0	0	72	0.85
6109122--6109160	12	2.9	14	85	14	55	28	0	0	71	0.86
6109127--6109161	3	11.0	3	93	6	52	31	0	0	68	0.90
6114278--6114315	18	2.1	18	95	0	67	31	7	5	55	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6114786--6114954	61	2.8	61	90	0	266	39	14	21	23	1.91
6115326--6115427	22	4.6	22	91	2	143	37	12	15	34	1.86
6115935--6115987	19	2.9	19	66	23	51	43	9	26	20	1.82
6115798--6116121	118	2.7	122	90	5	516	39	15	19	25	1.91
6116038--6116395	137	2.6	136	91	2	551	39	14	16	28	1.88
6116192--6116256	17	3.3	20	66	20	55	41	10	23	24	1.86
6116612--6116663	9	5.4	9	75	11	50	23	0	0	76	0.78
6116610--6116664	19	2.8	19	81	13	67	23	0	0	76	0.79
6118067--6118122	8	6.6	8	82	11	51	30	0	0	69	0.89
6118067--6118114	12	3.7	13	79	17	55	33	0	0	66	0.92
6118066--6118110	5	9.8	5	95	4	62	35	0	0	64	0.94
6118387--6118434	14	3.4	15	77	13	57	50	0	2	47	1.12
6118385--6118434	13	3.8	13	77	15	50	50	0	2	48	1.12
6120785--6121009	64	3.5	64	91	1	326	26	16	25	30	1.97
6120785--6121057	129	2.1	127	81	8	302	26	17	25	30	1.97
6120787--6121058	64	4.2	65	85	8	233	26	17	25	30	1.97
6127446--6127485	21	1.9	21	85	10	55	32	10	5	52	1.56
6129457--6129508	19	2.7	19	100	0	104	17	21	30	30	1.96
6129411--6129572	83	2.0	83	94	0	288	25	18	24	30	1.98
6129479--6129654	64	2.7	65	89	0	246	26	17	25	30	1.97
6129476--6129703	64	3.5	65	83	9	197	26	17	25	30	1.98
6132133--6132164	15	2.1	15	100	0	64	25	18	6	50	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6139834--6139871	18	2.1	18	95	0	67	34	10	2	52	1.50
6140343--6140511	61	2.8	61	92	0	284	38	14	23	24	1.91
6140878--6140984	22	4.9	22	90	2	153	36	14	13	35	1.85
6141356--6141682	118	2.7	121	90	4	527	38	14	19	26	1.91
6141596--6141953	137	2.6	135	90	3	567	39	15	15	28	1.89
6142180--6142228	16	3.1	16	86	13	75	30	0	0	69	0.89
6142180--6142246	32	2.1	31	86	2	89	38	0	0	61	0.96
6142181--6142229	3	16.0	3	80	19	57	32	0	0	67	0.91
6142884--6142930	13	3.2	16	70	29	50	29	2	4	63	1.25
6142945--6143032	2	44.0	2	100	0	176	50	0	0	50	1.00
6143408--6143441	15	2.2	16	89	5	52	38	0	0	61	0.96
6143702--6143739	15	2.6	14	88	8	58	50	0	2	47	1.15
6144391--6144445	21	2.6	21	91	0	83	32	27	20	20	1.97
6144433--6144484	20	2.6	20	100	0	104	38	17	21	23	1.93
6144474--6144519	21	2.2	21	92	0	74	23	21	26	28	1.99
6144574--6144642	21	3.3	21	73	15	70	24	23	20	31	1.98
6144726--6144752	6	4.5	6	100	0	54	33	51	14	0	1.43
6144753--6144784	5	6.4	5	96	0	55	34	21	43	0	1.53
6145269--6145293	6	4.2	6	100	0	50	0	16	48	36	1.46
6145378--6145705	21	15.8	19	76	13	188	35	22	19	21	1.96
6145386--6145665	21	13.4	21	76	15	235	37	22	19	21	1.95
6145382--6145705	105	3.1	105	91	2	494	36	23	19	21	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6145379--6145711	42	8.0	40	84	6	264	35	22	19	21	1.96
6145378--6145705	84	4.0	81	80	13	382	35	22	19	21	1.96
6148225--6148279	24	2.3	24	81	6	67	16	16	14	52	1.75
6148457--6148535	23	3.4	23	80	0	104	43	13	16	26	1.86
6148455--6148558	46	2.3	46	83	3	129	44	17	15	23	1.86
6152523--6152832	38	8.2	37	83	9	319	44	6	3	46	1.45
6152854--6152887	13	2.5	14	90	4	52	41	11	0	47	1.40
6152867--6152908	21	2.0	21	85	0	57	35	14	2	47	1.57
6152763--6152931	71	2.4	68	80	12	180	41	6	2	49	1.44
6152532--6152935	37	10.9	33	73	17	128	43	6	3	47	1.45
6166207--6166414	37	5.5	37	84	6	256	44	7	3	44	1.49
6166207--6166572	39	9.6	37	74	14	237	43	6	4	46	1.47
6166413--6166572	35	4.5	36	86	3	216	41	4	4	50	1.42
6166409--6166572	71	2.3	71	88	4	231	42	4	4	49	1.42
6166409--6166612	71	2.9	70	82	9	180	43	5	3	47	1.44
6167958--6168057	34	2.8	36	88	8	143	43	15	11	31	1.81
6167955--6168093	37	3.8	37	82	9	135	41	14	12	31	1.82
6168507--6168541	2	17.5	2	100	0	70	48	0	0	51	1.00
6168578--6168643	22	3.0	22	73	6	62	22	6	3	68	1.26
6168654--6168688	16	2.1	18	89	10	56	25	8	0	65	1.21
6169848--6169900	26	2.0	26	100	0	106	15	11	18	54	1.70
6173331--6173399	20	3.2	20	80	10	66	79	7	10	2	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6173331--6173392	14	4.3	14	76	15	54	79	8	11	1	1.01
6174031--6174085	22	2.5	22	96	0	101	36	25	12	25	1.91
6175043--6175324	36	8.0	36	77	8	285	26	19	13	40	1.88
6175099--6175287	102	1.9	102	87	2	281	26	19	13	40	1.88
6175063--6175387	138	2.4	137	82	3	420	27	20	12	40	1.88
6175299--6175456	68	2.4	66	84	4	201	32	22	8	36	1.85
6175673--6176020	100	3.4	100	90	3	570	33	26	18	22	1.96
6176497--6176596	34	2.8	36	91	8	161	43	15	13	29	1.83
6176497--6176632	37	3.8	35	84	9	159	41	13	13	30	1.84
6177045--6177106	2	31.5	2	96	3	117	48	0	0	51	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78