genome.fa.s9023.2.7.7.80.10.50.1000.2.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: VEPZ01009023.1 Hibiscus syriacus cultivar Beakdansim tig00112416_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  540103

Tables:   1   2   3   

This is table  2  of  3  ( 243 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)
242085--242123	18	2.2	18	86	9	53	35	2	2	58	1.25
244390--244493	13	7.9	13	70	19	56	60	0	1	36	1.14
244399--244496	16	5.9	16	74	10	72	60	1	1	37	1.11
246512--246602	18	4.8	18	81	10	110	18	19	31	29	1.96
246512--246602	40	2.4	38	90	7	141	18	19	31	29	1.96
250615--250677	18	3.3	18	81	16	81	19	22	30	28	1.98
250612--250671	22	2.9	22	85	14	92	21	23	28	26	1.99
252217--252279	29	2.2	29	97	2	119	36	3	3	57	1.31
266754--266803	21	2.4	21	96	0	91	46	0	0	54	1.00
273207--273239	2	16.5	2	100	0	66	51	0	0	48	1.00
273455--273479	3	8.3	3	100	0	50	68	0	0	32	0.90
275306--275363	30	1.9	30	82	0	71	18	20	24	36	1.95
276902--277020	35	3.3	36	87	5	170	42	18	5	33	1.72
281370--281485	35	3.3	35	84	3	151	43	12	3	40	1.60
283243--283324	29	2.8	29	94	1	137	32	14	9	42	1.79
288005--288086	29	2.8	29	92	1	137	34	14	8	42	1.76
291453--292172	338	2.1	337	92	2	1187	44	5	6	43	1.53
293361--293531	65	2.6	64	85	3	243	18	18	22	40	1.91
294922--294951	15	1.9	16	93	6	53	23	0	0	76	0.78
298622--298660	19	2.0	20	85	14	55	64	0	23	12	1.28
299303--299352	27	1.9	26	92	8	84	24	4	18	54	1.61
299514--299578	29	2.2	29	77	0	67	46	9	10	33	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
300263--300291	2	14.5	2	100	0	58	48	0	0	51	1.00
300478--300547	3	23.0	3	97	2	131	67	0	0	32	0.91
307288--307323	2	18.5	2	94	5	65	50	0	0	50	1.00
307701--307730	15	1.9	16	93	6	53	43	0	6	50	1.28
310448--310488	18	2.4	18	80	8	50	34	4	0	60	1.18
319516--319562	19	2.5	19	96	0	85	29	6	29	34	1.82
319976--320070	20	4.7	20	80	1	91	21	17	22	38	1.93
321682--321728	24	1.9	25	86	4	69	34	21	6	38	1.79
333573--333600	14	2.0	14	100	0	56	42	21	7	28	1.79
336393--336429	17	2.2	17	90	0	56	18	45	21	13	1.84
336429--336511	29	2.8	29	87	8	107	31	6	22	39	1.78
336435--336582	28	5.2	28	82	8	149	37	6	18	38	1.75
336460--336600	28	5.0	27	78	13	126	39	5	17	38	1.73
337364--337396	15	2.2	15	89	10	50	21	18	12	48	1.80
343609--343641	17	1.9	17	100	0	66	18	42	18	21	1.89
343629--343654	13	2.0	13	100	0	52	15	46	23	15	1.83
343676--343806	29	4.6	28	85	9	151	32	4	22	41	1.74
343676--343812	56	2.4	57	85	8	172	33	5	21	39	1.76
343700--343824	29	4.3	29	86	7	166	31	5	21	41	1.76
344596--344628	15	2.2	15	89	10	50	21	18	12	48	1.80
348385--348425	20	2.0	20	90	0	64	14	29	34	21	1.93
349405--349446	17	2.7	15	82	13	57	14	0	28	57	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
349409--349442	17	2.0	17	94	0	59	11	0	32	55	1.36
352172--352231	30	2.0	30	93	6	104	33	6	16	43	1.74
352321--352396	20	4.0	20	77	19	90	23	34	28	13	1.92
352347--352376	15	2.0	15	100	0	60	26	33	26	13	1.93
352434--352474	21	2.0	21	100	0	82	17	39	29	14	1.89
352511--352553	21	2.0	21	95	0	77	23	20	27	27	1.99
359893--359942	15	3.3	15	100	0	100	28	34	24	14	1.93
360109--360159	20	2.6	20	80	17	54	27	15	5	50	1.67
366765--366799	15	2.3	15	100	0	70	28	34	22	14	1.93
370887--370927	20	2.0	20	100	0	82	19	26	14	39	1.90
371857--371926	19	3.8	19	76	17	76	18	21	35	24	1.95
371857--371927	20	3.9	19	78	17	71	18	21	35	25	1.95
371857--371925	35	2.0	35	88	5	104	18	20	36	24	1.95
372064--372120	30	1.9	29	86	10	80	47	15	5	31	1.68
372064--372122	29	2.0	31	90	6	95	45	15	6	32	1.72
374560--374603	23	2.0	23	82	13	56	50	9	2	38	1.47
380323--380405	23	3.8	21	80	15	78	22	27	26	22	1.99
381982--382022	18	2.3	18	87	8	57	43	21	31	2	1.66
401490--401535	21	2.3	20	89	10	76	21	39	15	23	1.92
401496--401538	21	2.0	21	100	0	86	23	37	13	25	1.92
404323--404374	25	2.1	25	100	0	104	19	3	42	34	1.69
404854--404892	20	2.0	20	84	0	51	23	7	23	46	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
405070--405130	20	2.9	21	87	7	79	18	26	34	21	1.96
407658--407712	24	2.3	24	96	0	101	45	16	5	32	1.70
408986--409025	21	1.9	21	90	10	64	37	10	0	52	1.35
411447--411524	38	2.1	38	97	0	147	32	3	26	37	1.75
411449--411513	20	3.3	20	64	23	57	29	4	27	38	1.77
412489--412537	19	2.6	19	84	9	57	24	28	20	26	1.99
420736--420880	64	2.2	65	84	6	179	31	24	18	25	1.98
427664--427740	33	2.4	33	95	2	138	40	37	11	10	1.76
427500--427967	258	1.8	254	91	5	780	40	20	11	27	1.87
445090--445129	21	1.9	21	94	0	71	30	15	7	47	1.72
445124--445222	33	3.0	33	94	1	164	32	7	15	45	1.73
445208--445262	13	4.2	13	75	13	58	34	3	12	49	1.59
445458--445514	21	2.7	21	91	0	96	19	26	26	28	1.99
445699--445732	18	1.9	18	88	5	52	41	11	8	38	1.73
445826--445857	16	2.0	17	88	11	50	43	21	21	12	1.86
447652--447690	20	2.0	20	89	0	60	53	7	10	28	1.62
448903--448942	2	20.0	2	100	0	80	50	0	0	50	1.00
450551--453254	4	679.2	4	99	0	5317	25	0	25	49	1.50
453501--453633	30	4.4	30	96	0	221	24	18	23	33	1.97
453474--453633	60	2.7	60	89	1	221	23	18	23	34	1.96
456065--456108	21	2.0	22	82	8	54	43	36	4	15	1.68
461507--461540	14	2.4	14	95	0	59	50	5	8	35	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
464486--464531	20	2.4	18	79	10	56	43	0	0	56	0.99
464495--464538	20	2.2	20	84	12	54	43	2	0	54	1.12
464993--465034	16	2.6	16	84	3	57	57	0	11	30	1.35
467522--467567	20	2.2	21	88	3	67	15	10	10	63	1.53
468173--468217	17	2.8	16	80	12	56	75	0	4	20	0.97
468190--468230	21	1.9	22	85	5	57	68	2	4	24	1.22
468674--468708	3	11.7	3	100	0	70	31	0	0	68	0.90
469696--470860	84	14.2	82	77	5	985	25	19	24	30	1.98
469696--470860	248	4.7	247	82	2	1268	25	19	24	30	1.98
469669--470860	165	7.2	164	80	5	1055	25	19	24	30	1.98
473641--474202	279	2.0	280	99	0	1117	22	22	20	33	1.98
474336--474378	20	2.1	21	95	4	79	74	6	9	9	1.22
476673--476697	3	8.3	3	100	0	50	32	0	0	68	0.90
477228--477289	15	4.3	15	70	17	51	56	1	3	38	1.25
478058--479368	227	5.8	227	82	5	1227	28	23	26	21	1.99
479769--479900	63	2.0	66	84	7	173	38	4	18	37	1.72
479832--479988	64	2.5	60	82	10	176	43	3	17	35	1.67
479946--480122	55	3.1	56	80	8	207	37	6	19	36	1.78
484230--484326	32	3.1	32	78	14	128	28	17	18	35	1.94
484232--484324	31	3.0	31	81	7	116	30	18	19	32	1.95
484317--484408	29	3.1	30	84	7	109	20	19	28	31	1.97
489986--490085	45	2.2	45	92	0	164	25	28	9	38	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
490155--490195	6	6.8	6	100	0	82	68	14	0	17	1.22
491033--491973	228	4.1	226	83	3	978	29	24	24	22	1.99
491033--492003	456	2.1	455	81	3	1105	28	23	24	22	1.99
494559--494592	2	17.0	2	100	0	68	50	0	50	0	1.00
505490--505617	64	2.0	64	96	3	240	26	32	18	21	1.97
505939--506117	89	2.0	89	95	4	326	21	11	24	42	1.86
510450--510474	12	2.1	12	100	0	50	40	24	16	20	1.91
514401--514534	64	2.1	64	81	4	155	31	17	25	25	1.97
516320--516400	24	3.4	24	98	0	153	20	25	0	53	1.46
517652--517702	21	2.3	21	86	6	66	58	0	5	35	1.22

Tables:   1   2   3