genome.fa.s9624.2.7.7.80.10.50.1000.30.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: VEPZ01009624.1 Hibiscus syriacus cultivar Beakdansim tig00117016_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8249038

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   

This is table  30  of  38  ( 4514 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)
5934169--5934255	41	2.1	41	93	2	149	27	17	22	32	1.96
5934174--5934247	20	3.7	20	78	3	85	24	17	22	35	1.95
5940138--5940190	19	2.8	19	94	0	88	24	16	26	32	1.97
5941510--5941557	25	1.9	25	83	8	62	47	8	0	43	1.33
5944518--5944566	22	2.3	21	85	3	62	51	2	0	46	1.12
5944551--5944600	23	2.1	22	85	10	64	50	4	2	44	1.32
5946445--5946505	3	21.7	3	87	12	94	36	0	0	63	0.94
5946548--5946606	25	2.4	24	81	16	68	44	38	8	8	1.65
5948272--5948369	27	3.6	27	95	0	178	30	7	29	32	1.84
5948459--5948524	27	2.4	27	97	0	123	16	13	13	56	1.68
5949273--5949320	20	2.5	19	83	9	62	18	16	8	56	1.65
5950496--5950528	14	2.3	14	94	5	57	84	0	15	0	0.61
5950543--5950624	20	4.6	17	75	18	53	73	7	15	3	1.20
5950536--5950583	25	2.0	24	83	4	60	72	8	16	2	1.18
5950475--5950606	33	3.9	35	72	16	102	75	6	15	3	1.15
5950542--5950625	19	4.6	20	74	18	67	73	7	15	3	1.18
5950578--5950650	19	3.9	19	74	15	64	75	5	16	2	1.11
5951295--5951379	32	2.7	32	94	0	143	49	28	7	15	1.70
5951719--5951836	33	3.6	33	93	1	193	30	14	22	32	1.94
5951915--5952005	33	2.8	33	93	0	155	29	13	23	34	1.92
5951749--5952081	166	2.0	167	99	0	659	30	17	21	30	1.96
5952125--5952249	34	3.7	34	85	0	151	35	17	9	37	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5952417--5952714	76	3.9	76	80	6	320	30	16	14	38	1.89
5952770--5952889	37	3.2	37	84	3	141	25	20	15	38	1.92
5952764--5952889	39	3.3	38	84	3	146	26	20	15	36	1.93
5952789--5952980	100	1.9	103	86	4	282	26	20	15	38	1.92
5952893--5953082	72	2.6	72	80	5	202	23	20	16	40	1.91
5953023--5953256	39	6.0	39	93	0	360	27	17	17	37	1.92
5952893--5953256	78	4.8	77	82	4	388	26	18	16	38	1.92
5953270--5953440	43	4.0	43	81	5	211	26	14	28	30	1.95
5953480--5953586	42	2.6	41	77	15	112	26	20	21	31	1.98
5953564--5953873	90	3.5	90	91	1	498	26	19	21	31	1.97
5954109--5954176	3	22.7	3	83	16	88	36	0	0	63	0.95
5954108--5954174	13	5.2	13	87	12	86	37	0	0	62	0.95
5954109--5954176	10	6.5	11	79	20	83	36	0	0	63	0.95
5954219--5954265	22	2.0	24	88	8	71	44	38	6	10	1.65
5956724--5956818	21	4.5	21	95	0	163	23	27	15	33	1.95
5957917--5958248	130	2.5	130	77	3	308	41	16	9	32	1.80
5960551--5961127	134	4.3	134	84	4	698	30	16	21	31	1.95
5962318--5962362	19	2.4	18	78	10	54	8	17	2	71	1.23
5962329--5962393	8	8.4	8	79	6	71	13	21	0	64	1.28
5962330--5962400	23	3.1	23	97	0	133	14	21	0	64	1.28
5962342--5962452	15	7.6	14	71	18	66	9	19	0	70	1.15
5962330--5962390	4	15.8	4	76	6	54	14	22	0	62	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5962327--5962417	23	4.5	19	77	22	80	12	19	0	68	1.21
5962388--5962419	16	1.9	17	93	6	57	6	15	0	78	0.95
5962342--5962446	23	4.7	22	80	8	72	10	20	0	69	1.17
5962405--5962509	27	4.0	27	75	18	96	8	20	0	70	1.13
5973147--5973384	81	3.0	81	87	0	325	36	10	20	32	1.87
5973631--5973849	109	2.0	109	100	0	438	46	8	21	23	1.78
5978245--5978758	81	6.3	81	84	1	620	35	9	21	33	1.86
5978753--5979127	46	8.2	46	84	4	452	43	12	21	23	1.85
5978753--5979127	138	2.7	138	87	2	531	43	12	21	23	1.85
5981715--5982077	131	2.8	129	80	6	376	41	16	10	31	1.82
5982089--5982274	99	1.9	99	96	1	347	42	10	13	33	1.78
5982502--5982553	14	3.7	14	85	10	70	44	21	5	28	1.75
5982897--5982957	3	20.7	3	83	3	79	62	1	1	34	1.15
5987896--5988366	81	5.8	81	90	1	694	30	21	10	37	1.86
5987896--5988366	243	1.9	243	91	0	773	30	21	10	37	1.86
5992269--5992315	2	23.5	2	100	0	94	48	0	0	51	1.00
5992444--5992472	2	14.5	2	100	0	58	48	0	0	51	1.00
5999002--5999819	210	3.8	213	92	1	1260	50	8	11	29	1.67
5999002--5999819	426	1.9	426	88	5	1255	50	8	11	29	1.67
5999840--5999944	2	51.0	2	76	12	88	48	1	3	45	1.31
5999845--5999968	42	2.9	41	84	8	160	48	2	4	44	1.37
5999936--5999993	27	2.1	27	87	0	80	48	6	5	39	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6000034--6000071	11	3.5	11	88	0	58	50	2	2	44	1.30
6000077--6000127	17	2.9	17	82	2	66	41	1	5	50	1.37
6000223--6000276	11	5.3	11	70	17	53	35	9	0	55	1.32
6000223--6000265	22	2.0	22	90	0	68	34	9	0	55	1.32
6000267--6000328	18	3.7	17	75	14	58	48	6	4	40	1.50
6000341--6000383	18	2.4	18	88	0	68	39	6	4	48	1.51
6000338--6000417	42	1.9	42	89	0	124	41	8	6	43	1.61
6000354--6000404	24	2.1	25	96	3	95	41	7	5	45	1.57
6000341--6000417	18	3.9	18	75	18	64	40	9	6	44	1.62
6000388--6000468	33	2.5	33	82	8	110	41	9	7	40	1.66
6002006--6002032	6	4.5	6	100	0	54	0	33	14	51	1.43
6002498--6002582	3	28.7	3	81	13	97	65	0	1	32	1.00
6002489--6002583	22	4.4	22	76	12	99	63	0	1	35	1.02
6002626--6002702	2	36.0	2	75	17	66	44	5	2	48	1.39
6002626--6002702	20	3.8	20	80	13	88	44	5	2	48	1.39
6002656--6002724	34	2.0	36	85	5	97	46	7	2	43	1.46
6002773--6003014	18	13.9	18	65	20	77	45	7	6	40	1.58
6002746--6003001	33	8.5	31	67	24	140	44	7	7	41	1.60
6002883--6003003	58	2.1	57	93	1	215	43	6	7	42	1.58
6002921--6002969	25	2.0	25	87	0	71	42	8	8	40	1.64
6002784--6003065	138	2.0	137	80	11	310	46	6	6	40	1.56
6003073--6003213	61	2.3	61	83	0	192	51	4	9	35	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6005829--6005949	51	2.4	51	82	8	149	50	5	3	40	1.43
6005855--6005952	51	1.9	52	93	2	171	47	6	4	41	1.47
6005922--6005962	17	2.4	17	95	0	73	46	7	0	46	1.30
6006076--6006114	16	2.4	16	86	0	51	35	17	25	20	1.95
6006584--6006611	13	2.2	13	100	0	56	53	7	7	32	1.55
6013160--6013372	44	4.8	44	94	2	356	38	7	23	30	1.82
6013202--6013274	25	3.2	25	60	28	61	41	8	20	30	1.81
6013204--6013275	24	3.2	24	62	34	59	40	8	20	30	1.82
6019447--6019704	44	5.8	44	93	2	401	39	6	21	31	1.80
6020201--6020234	6	5.3	6	96	3	50	29	20	0	50	1.49
6020203--6020237	7	5.3	7	96	3	56	31	25	0	42	1.55
6024224--6024280	28	2.0	28	86	6	78	38	1	3	56	1.27
6024176--6024460	145	2.0	144	96	2	529	41	3	8	47	1.50
6025869--6025938	30	2.3	30	100	0	140	48	0	22	28	1.51
6027934--6027978	20	2.2	20	88	0	63	28	13	2	55	1.50
6029253--6029281	9	3.3	9	90	9	51	89	0	10	0	0.48
6032259--6032481	94	2.4	94	78	3	234	31	15	24	28	1.95
6032870--6033084	79	2.7	78	85	5	290	33	12	23	30	1.92
6033053--6033293	45	5.4	45	80	4	254	40	10	19	29	1.85
6033936--6034037	44	2.2	45	81	8	109	44	6	23	25	1.78
6034749--6034785	14	2.4	17	86	13	53	45	0	24	29	1.53
6037359--6037416	30	1.9	30	83	16	75	34	3	22	39	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6039849--6039902	20	2.7	20	97	0	99	18	27	27	25	1.98
6049016--6049235	96	2.3	96	85	5	286	35	15	22	27	1.93
6049577--6050289	57	12.5	57	92	0	1174	36	11	19	32	1.88
6052873--6052931	21	2.8	21	77	10	66	37	13	22	27	1.91
6056300--6056345	19	2.4	18	82	7	56	8	28	0	63	1.24
6059803--6059924	60	2.0	60	93	0	208	39	12	6	41	1.69
6066126--6066168	20	2.2	20	95	0	77	18	37	16	27	1.92
6078910--6078953	20	2.2	20	87	0	61	43	15	18	22	1.88
6081293--6081341	19	2.6	19	100	0	98	28	12	36	22	1.90
6081900--6082635	81	9.1	81	88	1	1003	35	10	22	31	1.88

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