genome.fa.s8488.2.7.7.80.10.50.1000.40.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: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12876159

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   52   53   54   

This is table  40  of  54  ( 6450 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)
9634395--9634428	14	2.4	14	90	0	50	44	26	20	8	1.81
9635917--9635963	24	2.0	24	95	0	85	36	21	21	21	1.96
9635917--9635977	24	2.5	24	83	0	59	34	21	19	24	1.96
9636818--9636891	20	3.8	19	75	5	76	22	17	22	36	1.95
9636897--9636953	21	2.8	20	91	2	69	36	19	21	22	1.95
9636895--9636941	21	2.2	22	88	7	78	40	17	21	21	1.91
9637381--9637406	10	2.6	10	100	0	52	61	11	7	19	1.53
9638254--9638303	21	2.3	23	80	13	61	50	2	10	38	1.48
9655259--9655297	19	2.0	20	95	5	71	51	10	7	30	1.64
9655946--9656004	8	7.2	8	76	16	50	3	30	0	66	1.08
9655942--9656018	5	13.5	6	69	23	51	3	32	0	63	1.12
9655951--9656004	15	3.9	15	75	22	64	3	31	0	64	1.11
9655942--9656005	25	2.5	25	97	2	119	3	31	0	65	1.08
9656191--9656230	20	2.0	20	100	0	80	20	5	40	35	1.74
9657493--9657561	22	3.4	19	79	13	75	31	15	24	27	1.96
9657972--9658348	45	8.3	45	91	0	592	41	12	20	25	1.87
9658318--9658404	27	3.5	27	73	26	109	44	11	22	20	1.84
9658318--9658419	47	2.2	47	94	5	188	45	11	21	21	1.84
9658342--9658419	20	3.5	20	73	26	77	44	11	21	21	1.84
9661963--9662017	27	2.0	27	96	0	101	43	7	9	40	1.64
9662834--9662879	17	2.6	18	86	10	67	52	2	2	43	1.25
9663210--9663272	32	2.0	32	84	6	83	46	17	9	26	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9664502--9664833	75	4.4	74	88	3	470	40	12	14	32	1.83
9664808--9664871	23	2.8	23	97	0	119	31	15	17	35	1.91
9664957--9665059	52	2.0	52	98	0	197	41	13	23	21	1.88
9669560--9669662	52	2.0	52	98	0	197	41	13	23	21	1.88
9669814--9669885	23	3.1	23	85	0	90	38	16	11	33	1.84
9669941--9670012	23	3.1	23	91	0	108	34	19	15	30	1.93
9669726--9670046	127	2.6	127	89	3	483	37	14	15	32	1.88
9670652--9670887	108	2.2	108	86	0	319	35	14	11	38	1.82
9693819--9693873	16	3.5	16	70	12	51	54	5	1	38	1.34
9693820--9693881	31	2.0	31	84	6	81	53	3	3	40	1.33
9700060--9700123	31	2.1	31	88	8	96	43	0	3	53	1.16
9700295--9700355	17	3.9	17	75	10	51	59	22	0	18	1.38
9700295--9700362	31	2.1	33	83	5	86	57	22	0	20	1.41
9700361--9700428	11	6.0	11	88	6	82	50	19	0	30	1.48
9700362--9700430	22	3.0	22	87	10	95	49	20	0	30	1.49
9701828--9701860	2	17.0	2	93	6	59	48	0	0	51	1.00
9701829--9701858	15	2.0	15	100	0	60	46	0	0	53	1.00
9701828--9701860	17	1.9	17	100	0	66	48	0	0	51	1.00
9702160--9702198	14	2.8	14	92	0	60	17	5	23	53	1.63
9702152--9702205	21	2.6	21	84	0	72	20	3	25	50	1.65
9702246--9702310	14	4.6	14	72	14	53	24	0	21	53	1.46
9702257--9702320	14	4.6	14	78	0	56	20	0	28	51	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9702251--9702318	21	3.2	21	78	0	73	22	0	23	54	1.45
9704542--9704581	3	13.7	3	94	5	73	30	0	0	70	0.88
9705294--9705335	12	3.4	13	81	18	54	71	0	28	0	0.86
9705750--9705791	12	3.4	13	81	18	54	71	0	28	0	0.86
9707535--9707597	28	2.3	27	78	8	63	46	1	3	49	1.27
9707676--9707709	16	2.0	18	88	11	54	64	5	2	26	1.30
9707847--9707919	34	2.2	34	82	7	87	39	1	21	36	1.62
9709148--9709183	18	2.0	18	89	10	56	36	5	8	50	1.56
9711224--9711282	2	30.5	2	75	13	52	47	5	1	45	1.34
9717502--9717548	2	23.5	2	91	0	76	44	4	0	51	1.21
9721612--9721680	2	35.0	2	97	2	131	50	0	0	49	1.00
9724344--9724381	2	19.5	2	89	5	60	47	2	0	50	1.15
9724824--9724874	15	3.2	16	69	8	50	54	17	1	25	1.53
9724824--9724882	30	1.9	32	93	6	104	54	15	3	27	1.57
9726760--9726812	21	2.5	21	87	0	79	20	24	18	35	1.95
9726802--9726988	20	9.3	20	79	6	209	37	20	17	24	1.93
9730331--9730419	20	4.4	20	87	2	126	34	23	22	19	1.96
9730391--9730486	33	2.8	33	88	3	129	40	21	23	13	1.89
9730501--9730585	33	2.5	33	86	1	107	16	22	16	44	1.86
9730690--9730726	14	2.6	14	86	0	56	48	21	0	29	1.50
9732628--9732811	20	9.9	20	78	15	180	41	22	19	16	1.90
9732696--9732776	33	2.4	33	83	2	99	45	23	19	11	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9732818--9732976	73	2.2	70	82	6	176	19	18	21	40	1.92
9732856--9732922	20	3.3	20	91	0	107	23	17	20	37	1.94
9734828--9734895	20	3.4	20	85	0	82	42	23	16	17	1.88
9734944--9734987	20	2.2	20	87	0	61	22	20	22	34	1.97
9735314--9735375	18	3.0	22	69	26	62	17	16	38	27	1.91
9735564--9735617	20	2.7	20	82	2	63	20	22	20	37	1.95
9735614--9735659	21	2.2	21	88	0	65	41	17	23	17	1.90
9744232--9744259	4	7.0	4	100	0	56	25	0	0	75	0.81
9746040--9746466	212	2.0	219	95	4	778	30	23	3	42	1.72
9747611--9747686	24	3.2	24	75	7	64	39	22	14	23	1.91
9747619--9747689	24	3.0	24	87	0	97	40	21	15	22	1.90
9748798--9748837	18	2.2	18	95	0	71	32	15	0	52	1.43
9749977--9750047	30	2.4	30	87	0	97	33	18	25	22	1.96
9752256--9752314	24	2.5	24	88	0	82	45	16	13	23	1.83
9756669--9756744	24	3.2	24	84	1	100	43	17	14	25	1.86
9759118--9759188	18	3.9	18	75	1	61	9	33	29	26	1.89
9761277--9761353	24	3.2	23	83	10	93	41	20	14	23	1.89
9765413--9765488	24	3.2	24	90	1	109	42	21	14	22	1.89
9773669--9773716	3	15.7	3	91	4	78	35	2	0	62	1.07
9775057--9775461	149	2.7	146	80	11	419	37	6	8	48	1.58
9775316--9775340	13	1.9	13	100	0	50	24	0	0	76	0.80
9776575--9776636	30	2.1	30	100	0	124	30	9	12	46	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9777682--9777740	20	2.9	20	92	2	100	23	32	28	15	1.95
9779345--9779389	21	2.2	21	84	4	56	15	11	8	64	1.49
9779356--9779401	20	2.2	21	88	3	67	17	10	8	63	1.51
9779378--9779412	13	2.6	13	86	4	52	22	8	5	62	1.45
9784899--9785050	52	2.8	53	82	7	191	35	15	23	26	1.94
9785411--9785468	22	2.6	22	91	0	98	34	17	12	36	1.87
9786190--9786299	45	2.4	45	84	6	141	26	23	19	30	1.98
9786231--9786373	76	1.9	74	85	5	198	25	20	19	34	1.96
9786307--9786420	45	2.5	45	85	2	147	24	18	21	35	1.96
9786144--9786593	121	3.8	120	85	4	491	26	20	21	32	1.97
9786457--9786514	21	2.8	21	76	7	64	34	25	20	18	1.96
9786768--9786810	3	14.0	3	90	4	68	34	2	0	62	1.08
9788149--9788549	149	2.7	139	78	12	369	37	6	7	47	1.58
9788387--9788411	11	2.3	11	100	0	50	40	0	0	60	0.97
9788519--9788571	27	2.0	27	88	7	81	58	1	0	39	1.09
9788544--9788581	19	2.1	18	90	5	58	55	0	0	44	0.99
9791223--9791272	19	2.7	18	77	17	57	66	2	0	32	1.03
9794073--9794124	22	2.4	22	93	0	95	19	48	9	23	1.78
9797437--9797497	25	2.5	25	81	7	72	34	1	1	62	1.15
9801742--9801781	17	2.3	18	91	8	73	20	25	27	27	1.99
9807578--9807784	81	2.5	83	87	4	289	32	14	12	41	1.82
9813276--9813310	16	2.1	18	89	10	56	40	20	5	34	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9813428--9813467	19	2.2	18	86	4	53	32	2	2	62	1.22
9813747--9813778	12	2.4	14	90	10	50	18	0	18	62	1.33
9814605--9814644	21	1.9	21	85	10	55	60	2	2	35	1.24
9816697--9816742	2	23.0	2	100	0	92	50	0	0	50	1.00
9821587--9821707	43	2.8	43	85	0	134	32	27	15	24	1.96
9821850--9822093	124	2.0	123	85	4	330	33	24	15	26	1.95
9822186--9822286	36	2.8	36	90	3	159	27	21	13	36	1.92
9822199--9822548	102	3.5	100	84	7	437	26	20	13	39	1.90
9822452--9822651	65	3.0	63	82	5	238	30	19	10	40	1.85
9824473--9824522	2	25.0	2	100	0	100	50	0	0	50	1.00

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   52   53   54