genome.fa.s8209.2.7.7.80.10.50.1000.27.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: VEPZ01008209.1 Hibiscus syriacus cultivar Beakdansim tig00110831_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6561538

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   

This is table  27  of  30  ( 3569 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)
5906060--5906171	33	3.4	33	81	9	147	14	21	20	43	1.87
5906080--5906171	19	5.4	19	63	24	69	16	18	19	45	1.85
5908464--5908488	12	2.1	12	100	0	50	0	28	0	72	0.86
5908663--5908716	24	2.2	24	90	0	81	42	20	12	24	1.87
5909771--5909828	20	2.9	20	97	0	107	37	24	22	15	1.93
5909851--5909924	19	4.5	16	83	16	66	13	20	18	47	1.82
5909847--5909914	19	3.8	19	87	12	101	13	22	17	47	1.82
5910031--5910067	14	2.6	14	86	0	56	48	21	0	29	1.50
5911932--5911998	19	3.5	19	79	4	80	38	23	22	14	1.92
5911987--5912044	14	3.9	14	75	16	62	48	24	17	10	1.78
5911979--5912049	32	2.2	33	92	2	117	47	21	19	11	1.80
5912056--5912151	19	5.6	17	72	21	78	11	19	22	45	1.82
5912078--5912135	14	3.9	14	79	16	71	8	17	25	48	1.75
5912061--5912151	32	2.8	33	94	3	166	10	18	23	47	1.80
5912136--5912190	20	2.8	19	83	8	65	16	23	23	36	1.94
5912672--5912716	18	2.5	18	88	0	72	13	15	44	26	1.83
5914036--5914109	20	3.8	20	77	8	80	47	22	16	13	1.81
5914343--5914386	22	2.0	22	100	0	88	18	13	45	22	1.84
5914574--5914667	20	4.7	20	80	2	89	23	18	24	34	1.96
5914554--5914668	20	5.7	20	78	5	88	23	17	23	35	1.95
5914657--5914749	20	4.5	21	75	4	91	17	23	18	40	1.90
5914596--5914730	41	3.3	41	81	4	130	19	20	20	39	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5914657--5914749	41	2.3	41	98	0	177	17	23	18	40	1.90
5918711--5918824	60	1.9	59	83	5	149	32	22	6	38	1.79
5918894--5919053	60	2.7	60	78	2	171	40	7	21	30	1.81
5918894--5919072	60	3.0	60	73	6	166	40	6	21	30	1.79
5924498--5924528	2	15.5	2	100	0	62	51	0	0	48	1.00
5925972--5926013	21	2.0	21	81	9	50	45	9	2	42	1.49
5926456--5926486	2	15.5	2	100	0	62	51	0	0	48	1.00
5929828--5929882	3	18.0	3	81	10	67	65	0	0	34	0.93
5929828--5929864	10	3.8	10	96	3	67	62	0	0	37	0.96
5929828--5929881	14	3.5	16	80	16	69	64	0	0	35	0.94
5929828--5929882	20	2.5	22	88	8	78	65	0	0	34	0.93
5930064--5930116	17	3.1	18	72	10	65	41	3	1	52	1.30
5930048--5930116	34	2.0	34	100	0	138	40	2	2	53	1.31
5931753--5931872	35	3.3	36	89	5	181	43	20	5	31	1.73
5931804--5931864	21	3.2	21	65	29	64	42	21	4	31	1.74
5931755--5931899	35	4.1	36	83	11	142	41	19	6	33	1.76
5936375--5936495	35	3.3	38	87	6	155	42	20	4	31	1.73
5936427--5936487	21	3.2	21	65	29	64	40	22	4	31	1.75
5936393--5936522	35	3.6	36	82	10	117	41	18	6	33	1.77
5938480--5938514	18	1.9	18	88	0	52	51	0	0	48	1.00
5940454--5940573	32	3.8	32	86	2	152	40	13	19	27	1.89
5940457--5940597	64	2.2	64	82	5	160	39	13	19	28	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5940457--5940597	32	4.4	32	83	1	115	39	13	19	28	1.89
5941969--5942010	14	2.9	15	79	10	52	54	0	0	45	0.99
5945319--5945622	143	2.1	142	84	1	385	36	16	11	36	1.84
5945595--5945666	32	2.2	32	85	0	99	26	23	8	41	1.82
5945446--5945808	175	2.1	175	88	1	548	34	17	11	37	1.85
5945659--5945721	33	2.0	32	84	12	85	33	15	9	41	1.80
5945637--5946066	144	3.0	143	83	3	560	37	18	10	34	1.85
5951573--5951649	38	2.0	38	97	0	145	20	19	18	41	1.90
5956995--5957035	17	2.4	17	95	0	73	31	21	9	36	1.86
5964628--5964706	26	3.0	26	100	0	158	60	8	7	22	1.52
5964872--5964899	14	2.0	14	100	0	56	14	42	7	35	1.73
5969109--5969154	24	2.0	24	82	4	58	65	2	2	30	1.16
5976202--5976249	21	2.3	21	85	7	62	35	2	0	62	1.07
5980746--5980773	2	14.0	2	100	0	56	50	0	0	50	1.00
5980849--5980911	2	32.0	2	77	15	60	44	7	0	47	1.32
5984964--5985180	74	3.1	67	80	11	240	37	5	5	51	1.49
5985043--5985177	69	1.9	70	91	4	220	40	5	5	48	1.50
5991954--5991984	3	10.0	3	93	6	53	67	0	0	32	0.91
5996599--5996642	3	15.0	3	85	4	54	59	0	2	38	1.10
5996837--5996920	42	2.0	42	84	9	109	40	16	19	23	1.91
5996811--5997411	248	2.4	249	88	2	886	34	17	16	30	1.93
5997584--5997665	42	2.0	42	82	2	103	31	23	21	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6000701--6000784	11	6.8	12	74	16	73	2	17	0	79	0.83
6000714--6000781	15	4.6	16	77	15	58	1	19	0	79	0.81
6000719--6000784	26	2.6	25	81	16	73	0	18	0	81	0.68
6000701--6000784	37	2.2	38	85	6	109	2	17	0	79	0.83
6000726--6000786	27	2.2	27	82	2	77	0	18	0	81	0.68
6000719--6000771	7	8.6	7	86	14	57	0	18	0	81	0.70
6000744--6000782	17	2.3	17	90	0	60	0	15	0	84	0.62
6000733--6000786	10	5.6	10	78	14	60	0	16	0	83	0.65
6001504--6001537	17	2.0	17	100	0	68	17	0	29	52	1.45
6002437--6002512	21	3.6	21	75	15	75	22	35	19	22	1.96
6002437--6002496	23	2.8	21	85	10	68	21	38	20	20	1.94
6008403--6008428	4	6.5	4	100	0	52	76	0	23	0	0.78
6008469--6008508	21	1.9	21	100	0	80	32	20	17	30	1.95
6014506--6014593	21	4.2	21	82	7	99	42	19	23	14	1.88
6020743--6020825	11	7.9	10	71	26	57	75	0	13	10	1.04
6020764--6020797	17	2.0	17	94	0	59	85	0	8	5	0.75
6020756--6020814	24	2.5	24	86	5	77	79	0	11	8	0.93
6020764--6020802	17	2.2	18	86	9	53	84	0	10	5	0.76
6022133--6023014	54	16.5	53	92	2	1412	31	18	25	25	1.97
6022133--6023014	107	8.3	106	92	2	1407	31	18	25	25	1.97
6037860--6037892	17	1.9	17	93	0	57	57	9	0	33	1.30
6041171--6041259	29	3.1	29	100	0	178	13	31	37	17	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6041281--6041322	18	2.3	18	95	0	75	35	23	23	16	1.95
6041319--6041491	15	10.6	15	72	17	123	20	8	53	17	1.69
6041334--6041490	82	1.9	83	86	3	228	21	8	51	18	1.72
6041377--6041501	51	2.5	51	93	5	213	20	7	54	18	1.66
6041908--6041956	21	2.3	21	82	3	62	32	0	16	51	1.45
6041933--6041995	28	2.2	30	88	5	94	33	0	11	55	1.35
6042485--6042541	16	3.3	16	75	17	60	40	0	10	49	1.37
6042802--6042860	26	2.3	25	75	18	66	47	8	3	40	1.51
6045744--6046233	26	19.8	26	76	16	384	43	2	9	43	1.50
6045689--6045910	97	2.3	98	94	0	383	44	2	9	43	1.51
6045867--6046235	98	3.8	97	88	5	480	43	2	9	44	1.49
6045744--6046233	124	4.0	124	86	7	549	43	2	9	43	1.50
6046430--6046462	17	1.9	17	93	0	57	36	6	12	45	1.66
6048825--6048915	44	2.0	46	87	8	134	47	12	0	40	1.41
6048846--6048983	41	3.3	40	76	15	111	47	11	0	40	1.45
6049147--6049178	17	1.9	16	93	6	55	0	37	0	62	0.95
6049120--6049177	4	14.0	4	75	7	53	1	34	0	63	1.04
6049120--6049177	25	2.3	25	96	0	107	1	34	0	63	1.04
6049239--6049290	25	2.1	25	92	0	86	28	32	9	28	1.89
6049401--6049460	23	2.6	23	97	0	111	23	8	45	23	1.80
6049466--6049603	29	4.8	29	95	1	233	22	29	31	16	1.96
6049611--6049648	19	2.0	19	100	0	76	21	42	15	21	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6049648--6049677	15	2.0	15	93	0	51	13	30	26	30	1.94
6049711--6049821	55	2.0	55	100	0	222	16	34	21	27	1.95
6049630--6049905	139	2.0	139	99	0	543	17	32	25	24	1.97
6049718--6049803	27	3.1	27	62	15	68	16	37	22	24	1.93
6049776--6049907	41	3.2	41	66	19	119	16	31	28	23	1.96
6052208--6052232	9	2.8	9	100	0	50	80	0	0	20	0.72
6052297--6052377	42	2.0	42	85	9	114	56	7	3	32	1.44
6052858--6052899	16	2.5	17	81	14	52	69	2	4	23	1.20
6054746--6054781	3	12.0	3	100	0	72	66	0	0	33	0.92
6055149--6055175	12	2.2	12	100	0	54	22	11	0	66	1.22

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