genome.fa.s1547.2.7.7.80.10.50.1000.29.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: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10425128

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   

This is table  29  of  51  ( 6083 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)
5805476--5805532	28	2.0	28	96	0	105	19	28	24	28	1.98
5805480--5805545	28	2.4	28	89	0	96	22	28	25	22	1.99
5808440--5808479	22	1.9	22	85	10	57	52	10	5	32	1.56
5809912--5809947	3	12.0	3	100	0	72	66	0	0	33	0.92
5811409--5811636	71	3.1	72	82	3	269	47	10	9	31	1.71
5811870--5812071	100	2.1	92	81	8	233	44	10	11	34	1.75
5811988--5812146	76	2.1	76	84	2	203	45	9	12	32	1.74
5811910--5812231	176	1.8	175	87	0	482	42	10	12	34	1.77
5812221--5812276	3	18.7	3	100	0	112	66	0	0	33	0.92
5812045--5812452	221	1.8	221	88	2	631	45	9	11	33	1.72
5812242--5812552	100	3.1	99	81	8	337	44	10	11	33	1.75
5812285--5812567	100	2.8	99	88	3	415	42	11	13	33	1.79
5812485--5812646	76	2.1	79	90	3	258	44	11	11	32	1.76
5812385--5812746	179	2.0	176	88	3	539	42	12	12	32	1.80
5812561--5812770	100	2.1	100	89	2	312	43	13	10	32	1.78
5813467--5813797	108	3.0	107	85	2	412	36	12	11	39	1.79
5813791--5813836	23	2.0	23	82	0	56	36	17	13	32	1.88
5820854--5820923	2	35.5	2	91	2	97	45	0	0	54	0.99
5821239--5821283	17	2.7	17	89	3	56	44	13	11	31	1.78
5821250--5821283	17	2.0	17	100	0	68	47	11	11	29	1.76
5822939--5822990	20	2.6	20	96	0	95	38	26	13	21	1.90
5822980--5823078	21	4.8	20	72	6	72	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)
5823045--5823238	20	9.6	20	81	5	221	35	25	19	19	1.95
5823045--5823238	60	3.2	60	83	0	253	35	25	19	19	1.95
5823620--5823690	33	2.2	33	94	0	124	11	23	16	47	1.79
5823811--5823865	14	3.6	14	73	21	56	40	23	27	9	1.85
5823811--5823881	33	2.2	33	92	0	115	42	25	23	8	1.82
5823877--5823974	19	5.7	19	70	22	81	10	24	22	42	1.84
5823899--5823988	14	5.7	14	74	23	81	8	25	23	42	1.83
5823882--5823996	33	3.5	33	95	0	212	9	24	20	45	1.81
5826336--5826360	12	2.1	12	100	0	50	0	28	0	72	0.86
5826535--5826581	24	2.0	24	87	8	69	38	21	14	25	1.92
5827276--5827623	20	17.4	20	87	4	452	20	19	26	34	1.96
5844266--5844304	20	2.0	20	94	0	69	35	5	17	41	1.72
5844318--5844357	20	2.0	21	85	14	57	35	5	12	47	1.63
5844265--5844414	53	2.9	52	94	3	266	32	6	12	48	1.65
5844371--5844410	20	2.0	20	95	0	71	37	5	12	45	1.64
5848915--5848953	20	2.0	20	89	0	60	38	5	15	41	1.69
5848967--5849006	20	2.0	21	85	14	57	35	5	12	47	1.63
5848914--5849063	53	2.9	52	93	3	257	32	6	12	48	1.65
5849020--5849059	20	2.0	20	90	0	62	35	5	15	45	1.68
5851946--5851975	10	3.0	10	95	0	51	73	0	20	6	1.05
5852299--5852357	24	2.4	24	81	10	66	32	1	3	62	1.21
5852306--5852368	27	2.4	27	81	2	74	39	1	3	55	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5852962--5852995	16	2.0	18	88	11	54	26	2	5	64	1.30
5853459--5853706	130	1.9	130	93	0	424	35	12	15	36	1.86
5854104--5854179	35	2.2	35	90	0	116	36	1	22	39	1.63
5855172--5855203	15	2.1	15	94	0	55	21	3	12	62	1.43
5855182--5855244	29	2.1	30	88	2	92	20	12	4	61	1.49
5855191--5855244	15	3.7	15	75	5	56	20	14	3	61	1.49
5857755--5857783	3	9.7	3	100	0	58	0	0	31	68	0.89
5860860--5860888	2	15.0	2	92	7	51	51	0	0	48	1.00
5865889--5865954	22	3.2	21	81	8	75	18	21	33	27	1.96
5870061--5870115	22	2.5	22	96	0	101	14	27	30	27	1.95
5871253--5871296	20	2.3	19	84	11	54	63	0	22	13	1.29
5885970--5886019	24	2.0	24	81	11	57	24	2	10	64	1.35
5890046--5890094	23	2.1	23	88	7	73	57	16	2	24	1.50
5891840--5891984	54	2.6	54	81	5	175	30	19	20	30	1.97
5895005--5895038	2	16.5	2	93	6	59	50	2	0	47	1.16
5895469--5895535	29	2.3	29	97	0	125	23	22	2	50	1.62
5895516--5895566	21	2.4	21	96	0	93	27	19	3	49	1.66
5897218--5897284	8	9.4	7	75	18	59	29	0	1	68	0.98
5897217--5897276	30	1.9	30	87	12	86	30	0	1	68	0.99
5900823--5900883	21	2.9	21	85	2	77	80	6	9	3	1.00
5900809--5900878	11	6.5	11	75	15	58	81	7	8	2	0.96
5902689--5902816	36	3.6	33	80	14	130	27	21	13	37	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5902714--5903164	36	12.6	36	73	13	315	27	18	12	41	1.87
5902897--5902981	42	2.0	42	93	0	143	22	17	11	48	1.80
5902860--5903009	78	1.9	79	86	1	212	23	19	12	44	1.85
5903098--5903170	22	3.7	21	68	24	68	28	20	13	36	1.91
5903043--5903164	37	3.3	37	82	4	156	23	19	16	40	1.91
5903210--5903378	84	2.0	84	81	2	196	30	25	19	24	1.98
5903623--5903684	30	2.2	30	86	13	87	30	0	1	67	1.00
5904131--5904175	23	1.9	24	86	4	65	22	8	0	68	1.16
5906683--5906733	24	2.1	24	82	13	61	19	23	23	33	1.97
5911587--5911650	23	2.8	23	85	0	83	29	26	25	18	1.98
5913129--5913210	21	3.9	21	95	1	128	18	25	24	31	1.97
5914099--5914141	17	2.6	16	78	7	50	39	25	0	34	1.56
5916923--5916991	23	3.0	23	86	0	93	27	26	26	20	1.99
5918476--5918557	21	3.9	21	96	1	146	18	28	24	29	1.98
5922968--5922999	2	16.0	2	100	0	64	50	0	0	50	1.00
5923062--5923116	2	27.5	2	96	0	101	47	0	0	52	1.00
5924226--5924263	20	1.9	20	94	0	67	26	21	18	34	1.96
5928415--5928461	2	23.5	2	88	0	67	48	0	2	48	1.13
5930471--5930495	12	2.1	12	100	0	50	8	0	24	68	1.16
5933073--5933115	20	2.2	20	87	8	61	37	18	9	34	1.83
5935289--5935331	13	3.2	13	96	3	77	23	30	30	16	1.96
5935282--5935331	20	2.5	20	90	6	75	26	30	28	16	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5935321--5935378	17	3.4	17	97	0	107	15	24	43	17	1.87
5935282--5935331	7	7.4	7	88	8	77	26	30	28	16	1.96
5935379--5935423	9	4.7	10	76	20	51	20	35	26	17	1.95
5935372--5935461	19	4.7	19	86	6	110	26	31	24	17	1.97
5942648--5942690	13	3.2	13	96	3	77	23	30	30	16	1.96
5942648--5942702	7	8.4	7	80	15	73	21	29	32	16	1.95
5942680--5942707	12	2.3	12	100	0	56	14	25	42	17	1.87
5942673--5942728	17	3.2	17	89	5	76	16	23	42	17	1.88
5942733--5942796	19	3.3	19	84	2	83	29	29	21	18	1.97
5947232--5947277	23	2.0	23	95	0	83	36	0	13	50	1.41
5952177--5952223	2	23.5	2	100	0	94	51	0	0	48	1.00
5953927--5953957	15	2.1	15	100	0	62	29	25	6	38	1.81
5954941--5954999	26	2.2	27	78	3	66	50	5	0	44	1.24
5962170--5962243	2	37.0	2	100	0	148	50	0	0	50	1.00
5966803--5966898	50	1.9	50	95	0	174	37	11	22	28	1.89
5967978--5968158	76	2.4	76	88	1	274	25	19	20	33	1.97
5968170--5968695	113	4.7	113	91	0	806	38	14	19	26	1.91
5968170--5968695	225	2.3	226	89	1	824	38	14	19	26	1.91
5968534--5968578	24	1.9	23	82	13	56	48	6	26	17	1.72
5968635--5968732	40	2.5	40	100	0	196	47	9	24	18	1.77
5968522--5968996	163	3.0	159	91	3	624	41	13	19	25	1.88
5968618--5968998	163	2.3	163	96	0	699	42	13	19	24	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5968798--5968895	40	2.5	40	94	0	169	51	9	21	18	1.74
5968897--5969202	102	3.0	101	77	9	325	38	16	17	27	1.90
5973099--5973133	2	17.5	2	93	0	61	45	2	0	51	1.16
5973309--5973391	31	2.6	32	79	7	89	30	21	12	36	1.90
5973464--5973554	32	2.8	32	98	0	173	26	20	16	36	1.94
5975041--5975070	15	2.0	15	93	0	51	33	23	20	23	1.97
5978148--5978240	3	31.0	3	84	0	123	38	2	0	59	1.10
5980270--5980312	21	2.1	20	86	4	59	34	2	2	60	1.22
5990943--5991004	10	6.4	10	71	25	53	82	1	16	0	0.75
5990939--5991004	8	8.6	8	72	20	52	83	1	15	0	0.72

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