genome.fa.s9175.2.7.7.80.10.50.1000.47.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: VEPZ01009175.1 Hibiscus syriacus cultivar Beakdansim tig00112738_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10629029

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  47  of  51  ( 6037 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)
9698645--9698831	102	1.8	102	85	6	263	39	12	20	27	1.89
9698900--9698984	37	2.3	36	87	2	116	47	12	15	24	1.81
9699000--9699104	15	6.5	15	80	14	120	39	14	19	27	1.90
9699015--9699134	52	2.3	52	98	0	231	39	13	20	27	1.89
9699082--9699307	37	6.4	37	74	13	145	38	13	19	28	1.90
9699107--9699205	37	2.7	37	95	1	173	42	14	19	24	1.88
9699116--9699373	102	2.5	102	88	0	354	37	13	18	30	1.90
9699116--9699439	102	3.2	101	82	3	276	37	13	18	29	1.89
9700056--9700154	32	3.1	31	81	4	126	38	19	12	30	1.88
9701085--9701223	70	2.0	69	87	6	201	25	16	21	36	1.94
9701307--9701331	13	1.9	13	100	0	50	0	16	4	80	0.87
9704459--9704536	9	8.2	9	76	10	66	76	1	3	17	1.00
9704539--9704668	39	3.3	38	76	16	122	63	1	2	32	1.16
9707381--9707408	3	9.3	3	100	0	56	32	0	0	67	0.91
9713130--9713223	32	2.9	31	75	16	93	26	26	12	34	1.92
9716058--9716109	20	2.6	20	87	6	70	40	26	0	32	1.57
9718685--9718759	30	2.5	30	91	0	114	38	17	24	20	1.93
9720266--9720293	3	9.3	3	100	0	56	32	0	0	67	0.91
9721407--9721445	15	2.6	15	84	11	53	25	2	10	61	1.41
9721500--9721545	13	3.5	13	80	14	58	28	4	10	56	1.53
9730612--9730645	13	2.5	13	90	4	50	47	8	2	41	1.50
9730596--9730671	20	4.0	20	71	10	59	44	9	6	39	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9730532--9730742	92	2.3	92	96	0	386	39	8	9	42	1.68
9730704--9730857	13	11.8	13	72	12	75	42	7	5	43	1.57
9730688--9730731	20	2.2	20	83	0	52	47	9	2	40	1.48
9730715--9730772	24	2.4	23	85	5	71	43	6	5	44	1.53
9730532--9730801	92	3.0	90	86	6	287	40	7	8	43	1.65
9730878--9730925	21	2.3	21	88	0	69	41	6	6	45	1.54
9730936--9730986	15	3.3	15	71	15	50	41	3	3	50	1.39
9730968--9731107	22	6.2	22	69	13	97	42	3	7	47	1.48
9731167--9731226	31	1.9	31	89	0	93	40	3	3	53	1.34
9731243--9731339	15	6.8	14	73	17	76	47	0	3	49	1.17
9731249--9731310	21	2.8	22	81	16	67	48	0	1	50	1.10
9731233--9731315	18	4.4	19	75	23	70	50	1	1	46	1.16
9731270--9731339	18	4.2	17	77	13	67	47	0	2	50	1.16
9732059--9732101	19	2.3	19	87	0	59	44	39	2	13	1.57
9737059--9737125	17	3.9	17	84	0	71	7	29	22	40	1.81
9737798--9738084	45	6.4	45	89	1	389	28	23	11	36	1.90
9737757--9738041	134	2.1	136	87	1	403	28	23	12	35	1.91
9738159--9738381	81	2.8	81	93	0	365	28	25	12	33	1.92
9739907--9739984	24	3.3	24	98	1	149	48	8	0	42	1.34
9739915--9739979	12	5.3	13	67	25	52	50	7	0	41	1.31
9740192--9740254	16	3.9	16	80	12	67	41	12	19	26	1.87
9755007--9755133	32	4.0	32	78	4	130	37	18	12	32	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9756771--9756823	19	2.7	21	72	16	60	64	0	22	13	1.28
9759731--9759765	15	2.3	15	100	0	70	11	22	28	37	1.89
9766471--9766542	26	2.8	26	100	0	144	43	2	0	54	1.15
9766482--9766527	16	3.2	16	66	33	50	43	4	0	52	1.21
9768616--9768706	23	4.0	23	81	8	105	32	20	18	27	1.96
9768609--9768705	46	2.2	45	81	7	117	34	21	16	27	1.95
9775356--9775453	23	4.3	23	90	2	146	27	26	19	26	1.99
9783941--9783983	20	2.2	20	91	0	68	32	11	20	34	1.89
9797729--9797758	15	2.0	15	93	0	51	40	3	3	53	1.34
9800649--9800791	65	2.2	65	81	7	166	27	20	22	29	1.98
9809214--9809337	65	1.9	64	86	4	178	32	16	22	29	1.95
9811335--9811368	13	2.6	13	90	9	52	38	5	20	35	1.77
9811826--9811905	20	3.8	20	70	12	63	35	18	18	27	1.95
9815456--9815611	65	2.4	64	82	5	172	30	16	21	31	1.95
9821986--9822159	38	4.7	36	79	12	167	41	7	4	46	1.52
9825003--9825082	39	2.1	39	92	0	133	15	26	20	38	1.91
9831956--9833180	607	2.0	609	96	3	2268	33	15	28	22	1.95
9841641--9841675	2	17.5	2	100	0	70	48	0	0	51	1.00
9843875--9844020	79	1.8	79	89	0	229	37	12	23	26	1.90
9844004--9844257	45	5.8	45	80	7	281	41	9	19	29	1.83
9844826--9844855	2	15.5	2	93	6	53	50	0	0	50	1.00
9846655--9846715	27	2.3	27	100	0	122	34	26	6	32	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9846702--9847168	243	1.9	243	90	3	744	27	18	13	40	1.88
9852562--9852601	16	2.5	16	83	0	53	32	22	30	15	1.94
9853741--9853813	24	3.0	25	84	9	98	31	21	21	24	1.98
9854725--9854768	21	2.1	21	86	0	61	25	22	22	29	1.99
9858929--9859669	371	2.0	371	95	4	1343	34	23	14	28	1.94
9874170--9874435	136	2.0	135	99	0	523	36	17	14	31	1.90
9880702--9880746	23	2.0	23	95	0	81	35	11	4	48	1.59
9883286--9883317	3	10.7	3	93	0	55	31	0	3	65	1.08
9883898--9883968	32	2.3	32	80	4	83	19	9	5	64	1.43
9883962--9884020	19	3.2	19	79	9	59	45	5	3	45	1.42
9892737--9892821	21	4.0	21	72	10	66	29	21	18	30	1.97
9900004--9900333	124	2.7	124	87	0	453	33	22	15	28	1.95
9900753--9900784	3	10.7	3	93	0	55	37	0	0	62	0.95
9903124--9903211	20	4.0	23	71	15	69	43	1	0	55	1.07
9903375--9903468	27	3.4	27	71	12	84	45	1	1	52	1.15
9903517--9903563	22	2.1	23	84	4	60	51	0	2	46	1.13
9903490--9903569	32	2.4	34	80	12	96	48	0	2	48	1.14
9906448--9906477	16	1.9	16	93	6	53	60	0	36	3	1.14
9907472--9907496	5	5.0	5	100	0	50	20	0	0	80	0.72
9908835--9908896	31	2.0	30	84	9	81	12	12	11	62	1.54
9910938--9910988	17	3.1	17	78	16	54	68	5	21	3	1.27
9910931--9910995	31	2.1	31	86	11	89	73	6	16	3	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9911013--9911039	14	1.9	14	100	0	54	81	11	7	0	0.87
9910988--9911036	19	2.5	20	80	9	57	83	4	8	4	0.89
9910984--9911036	25	2.1	25	82	6	63	83	3	9	3	0.90
9912438--9912487	19	2.7	18	78	9	57	14	6	0	80	0.90
9914539--9914663	29	4.3	28	77	7	108	36	7	9	46	1.64
9915409--9915578	63	2.7	62	82	6	216	28	14	16	40	1.88
9925647--9925686	21	1.9	21	89	0	62	62	20	0	17	1.33
9927123--9927162	21	1.9	21	89	0	62	62	20	0	17	1.33
9927564--9927603	12	3.3	12	89	0	62	22	25	45	7	1.78
9927558--9927603	18	2.6	18	85	0	56	23	26	43	6	1.78
9935512--9935570	23	2.6	23	69	0	64	28	20	32	18	1.96
9938618--9938643	4	6.5	4	100	0	52	0	23	0	76	0.78
9940064--9940109	20	2.2	21	88	3	67	23	13	17	45	1.83
9943782--9943853	30	2.5	28	76	14	67	16	11	4	68	1.35
9945759--9945797	16	2.4	16	84	12	53	33	2	2	61	1.23
9952142--9952231	29	3.0	29	74	15	85	42	6	16	34	1.75
9954708--9954814	31	3.3	31	68	23	85	35	19	21	23	1.96
9954709--9954838	66	2.0	66	90	0	206	33	20	23	22	1.97
9958524--9958650	66	1.9	66	88	0	191	35	21	22	21	1.96
9966211--9966265	24	2.3	24	78	9	60	65	3	7	23	1.34
9966728--9966770	22	2.1	21	87	12	63	48	11	16	23	1.78
9968037--9968251	95	2.3	95	82	1	261	38	13	22	25	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9968656--9969072	45	9.2	45	89	1	602	41	14	20	23	1.89
9973523--9973741	94	2.3	94	81	5	246	39	13	21	25	1.90
9974145--9974442	45	6.8	45	84	9	395	40	13	21	25	1.89
9974211--9974285	35	2.1	35	97	0	141	38	13	22	25	1.90
9974166--9974420	80	3.1	80	80	13	316	39	13	21	25	1.90
9974145--9974375	125	1.8	125	92	3	394	39	13	21	25	1.90
9975671--9975728	26	2.2	26	96	0	107	37	8	29	24	1.85
9979370--9979571	95	2.1	95	83	3	264	39	13	20	26	1.89
9979994--9980318	45	7.2	45	88	1	465	39	15	20	25	1.91
9979994--9980318	134	2.4	135	87	2	465	39	15	20	25	1.91

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