genome.fa.s8082.2.7.7.80.10.50.1000.25.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: VEPZ01008082.1 Hibiscus syriacus cultivar Beakdansim tig00110584_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6025995

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   

This is table  25  of  28  ( 3312 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)
5104037--5104088	19	2.5	21	84	9	63	28	17	17	36	1.92
5108080--5108319	119	2.0	119	100	0	480	39	14	16	29	1.88
5110300--5110709	56	7.3	56	89	0	597	35	18	11	34	1.87
5111108--5111159	19	2.7	20	84	3	70	23	26	15	34	1.94
5112653--5112733	39	2.0	40	85	2	110	32	19	19	28	1.97
5113546--5113621	38	2.0	40	81	5	93	28	2	6	61	1.34
5116906--5116943	12	3.1	13	85	7	53	47	0	10	42	1.38
5117356--5117393	16	2.4	16	90	0	67	28	28	13	28	1.94
5118418--5118451	14	2.4	14	85	0	50	64	2	0	32	1.08
5118541--5118572	13	2.5	13	89	0	55	43	6	0	50	1.27
5118959--5119026	24	2.8	24	88	0	91	32	11	0	55	1.36
5119506--5119565	26	2.3	26	97	0	111	26	26	16	30	1.97
5119796--5119836	14	2.9	14	88	0	64	36	4	21	36	1.75
5119840--5119879	14	2.9	14	92	0	62	30	10	17	42	1.82
5120906--5120961	28	2.0	28	89	10	87	44	5	0	50	1.25
5123145--5123203	17	3.5	17	90	0	82	38	8	16	35	1.80
5143064--5143130	32	2.2	31	83	5	82	53	4	16	25	1.61
5145111--5145500	131	3.0	130	79	3	419	26	17	31	24	1.97
5145702--5145829	66	1.9	66	83	9	163	42	14	12	29	1.83
5145799--5145890	37	2.4	39	83	7	109	38	15	16	30	1.89
5146234--5146274	16	2.6	16	88	7	57	19	2	26	51	1.59
5147013--5147057	20	2.2	20	96	0	81	22	17	13	46	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5155923--5155982	30	2.0	30	100	0	120	30	16	6	46	1.73
5157197--5157241	19	2.3	20	92	3	74	37	11	6	44	1.66
5157197--5157244	20	2.5	19	93	3	78	35	10	6	47	1.63
5160881--5160928	18	2.6	18	86	6	60	35	12	27	25	1.92
5161437--5161552	60	1.9	60	89	0	178	36	12	21	29	1.91
5161503--5161821	52	6.0	52	85	2	377	37	13	22	25	1.91
5163016--5163040	13	1.9	13	100	0	50	48	16	16	20	1.82
5168375--5168797	52	8.0	54	82	12	359	37	14	22	26	1.92
5168437--5168796	52	7.0	52	83	11	418	36	14	23	25	1.92
5168512--5168595	41	2.0	41	95	0	150	40	11	23	23	1.88
5168459--5168732	93	2.8	98	86	6	369	36	13	24	25	1.92
5168618--5168699	26	3.2	26	65	25	73	34	15	25	24	1.95
5174270--5174294	13	1.9	13	100	0	50	16	16	16	52	1.76
5175170--5175231	6	9.7	6	84	8	61	0	22	0	77	0.77
5175170--5175205	7	5.1	7	90	10	56	0	16	0	83	0.65
5175165--5175231	12	5.3	13	79	10	68	0	20	1	77	0.85
5175170--5175231	20	3.2	19	82	8	72	0	22	0	77	0.77
5175170--5175224	13	4.2	14	82	15	64	0	21	0	78	0.76
5176855--5176907	27	2.0	27	88	0	79	37	18	16	26	1.93
5188927--5188960	17	2.0	17	88	0	50	52	0	8	38	1.33
5189407--5189455	25	1.9	26	83	4	64	44	12	4	38	1.61
5189449--5189510	20	3.4	18	76	14	65	56	12	6	24	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5190565--5190589	10	2.5	10	100	0	50	16	8	0	76	1.02
5197434--5197459	6	4.3	6	100	0	52	34	34	0	30	1.58
5197964--5198163	72	2.9	67	86	7	251	40	15	17	26	1.89
5198030--5198126	32	2.8	35	68	20	87	37	14	19	28	1.91
5199876--5199965	31	2.9	30	88	3	117	26	11	7	54	1.62
5201443--5201910	258	1.8	254	85	3	652	41	9	13	35	1.77
5210088--5210940	183	4.7	183	89	1	1180	43	13	14	28	1.83
5210109--5210905	367	2.2	365	89	3	1210	43	13	13	28	1.83
5212951--5212993	9	4.8	9	97	0	68	39	0	55	4	1.20
5212940--5212993	27	2.0	26	85	3	72	38	1	53	5	1.35
5217520--5218673	200	5.8	200	90	1	1723	40	12	14	32	1.84
5221222--5221463	118	2.1	116	88	1	358	29	19	14	37	1.90
5221797--5221825	7	4.1	7	100	0	58	13	44	13	27	1.82
5222739--5222852	60	1.9	59	83	5	149	32	26	3	37	1.73
5222745--5222894	59	2.5	58	78	12	144	32	24	5	38	1.78
5223028--5223192	60	2.7	59	79	7	163	41	6	18	33	1.75
5223501--5223558	20	3.2	20	68	31	67	53	0	24	22	1.46
5223494--5223558	33	2.0	33	100	0	130	50	0	24	24	1.49
5227043--5227217	90	2.0	89	90	5	282	36	12	6	45	1.66
5228187--5228224	19	2.0	19	100	0	76	26	26	15	31	1.96
5231109--5231155	20	2.3	20	100	0	94	31	4	4	59	1.36
5232463--5232515	20	2.7	20	80	11	56	37	13	16	32	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5232749--5232774	2	13.0	2	100	0	52	50	0	0	50	1.00
5240544--5240595	21	2.5	21	85	14	65	38	3	7	50	1.50
5241816--5242301	81	6.0	81	87	0	641	28	22	12	37	1.90
5242252--5242640	68	5.7	69	84	3	486	30	23	13	31	1.93
5246644--5246992	179	1.9	182	98	1	677	39	17	10	32	1.83
5247547--5247593	2	23.5	2	100	0	94	51	48	0	0	1.00
5247653--5248043	81	4.8	81	85	3	493	29	22	10	36	1.88
5247652--5248043	161	2.4	161	87	2	545	29	22	10	36	1.88
5248002--5248077	26	3.2	26	62	27	67	31	25	9	34	1.87
5247997--5248089	46	2.0	46	100	0	186	30	26	8	34	1.86
5247917--5248170	127	2.0	127	89	0	391	29	24	11	35	1.90
5248122--5248388	68	3.9	67	76	9	254	30	23	13	32	1.93
5248113--5248388	136	2.0	136	84	2	358	30	23	14	32	1.94
5250933--5251743	81	10.0	81	85	1	1032	30	18	12	38	1.88
5253646--5253676	2	15.5	2	100	0	62	51	0	0	48	1.00
5259098--5259514	45	9.3	45	85	2	532	44	11	22	22	1.84
5259094--5259514	135	3.1	134	89	1	592	44	11	22	22	1.84
5259409--5259483	24	3.3	23	68	11	64	44	10	22	22	1.84
5261096--5261212	47	2.4	47	80	2	135	28	17	9	45	1.79
5261621--5261800	95	1.9	95	83	2	236	27	21	16	35	1.94
5266876--5266924	21	2.3	21	89	0	80	28	18	22	30	1.97
5274824--5274961	65	2.1	64	84	5	170	32	21	14	31	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5281153--5281196	13	3.3	13	77	3	52	38	11	6	43	1.67
5283204--5283238	13	2.6	14	86	13	56	45	8	5	40	1.58
5290953--5290999	24	2.0	24	95	4	87	25	25	12	36	1.92
5291114--5291268	78	2.0	78	98	1	303	25	18	18	38	1.93
5291737--5291773	14	2.7	14	91	4	58	29	18	8	43	1.79
5295323--5295421	45	2.2	45	92	0	162	42	12	23	22	1.87
5298718--5298751	18	1.9	17	88	5	50	50	0	8	41	1.34
5302838--5303148	156	2.0	153	98	1	595	36	9	20	33	1.84
5310144--5310175	15	2.1	15	94	0	55	18	12	15	53	1.73
5311737--5311787	22	2.3	22	96	0	93	33	11	23	31	1.91
5312308--5312451	45	3.2	45	91	0	225	45	13	20	20	1.85
5314915--5314960	22	2.1	23	84	8	60	39	6	13	41	1.70
5315988--5316103	58	2.0	57	98	1	223	31	16	20	31	1.95
5328545--5328686	45	3.2	45	91	0	230	45	11	21	21	1.82
5332536--5332608	24	3.2	24	66	18	64	45	10	19	24	1.82
5332582--5332650	33	2.1	33	91	5	113	44	11	20	23	1.83
5332478--5332617	45	3.1	45	93	0	235	44	12	22	20	1.85
5332537--5332695	78	2.0	78	95	0	282	44	11	20	22	1.84
5332615--5332712	45	2.2	45	88	3	144	45	12	19	22	1.83
5332637--5332707	21	3.2	21	67	11	52	45	11	21	22	1.83
5332496--5332732	123	1.9	123	86	3	334	45	11	20	22	1.83
5336842--5337300	41	11.2	41	70	3	260	35	15	12	35	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5336842--5337089	123	2.0	123	88	0	361	34	16	12	36	1.86
5338706--5338741	11	3.0	12	88	12	56	25	25	0	50	1.50
5338962--5339091	68	1.9	70	83	3	174	32	13	8	45	1.74
5357637--5357676	21	2.0	20	90	5	62	27	12	20	40	1.88
5359260--5359397	41	3.4	41	86	7	183	31	16	15	35	1.91
5364886--5365262	45	8.4	45	94	2	611	30	23	7	38	1.82
5367467--5367504	15	2.5	15	91	8	60	28	18	28	23	1.98
5371142--5371507	41	9.0	41	67	6	159	36	16	12	34	1.87
5371079--5371232	82	1.9	82	81	8	188	37	16	11	35	1.84
5371162--5371334	82	2.1	82	81	0	193	38	15	13	32	1.87

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