genome.fa.s7957.2.7.7.80.10.50.1000.22.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: VEPZ01007957.1 Hibiscus syriacus cultivar Beakdansim tig00110384_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8646418

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   

This is table  22  of  43  ( 5063 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)
4529853--4529887	6	5.8	6	100	0	70	17	14	0	68	1.21
4531347--4531385	13	2.6	16	88	11	57	51	0	0	48	1.00
4531577--4531631	22	2.4	23	76	11	60	70	5	1	21	1.16
4531579--4531634	27	2.0	28	82	3	69	69	5	3	21	1.24
4532494--4532555	3	21.3	3	75	18	51	64	0	1	33	1.03
4532478--4532535	26	2.3	26	88	8	84	60	0	1	37	1.07
4532523--4532555	14	2.5	13	86	13	50	69	0	0	30	0.88
4532499--4532545	20	2.6	18	75	18	53	63	0	2	34	1.06
4533831--4533862	12	2.8	12	95	4	57	40	0	0	59	0.97
4533903--4534016	2	59.5	2	76	8	103	46	0	0	51	1.13
4533955--4534025	6	12.2	6	91	7	76	39	1	0	59	1.06
4533967--4534038	20	3.7	20	78	14	69	34	1	0	63	1.03
4534597--4534627	12	2.6	12	100	0	62	45	0	0	54	0.99
4534614--4534954	22	15.6	22	85	3	465	41	0	10	48	1.37
4535349--4535403	28	2.0	28	100	0	110	50	14	3	30	1.60
4535695--4535732	20	1.9	20	88	0	58	31	21	0	47	1.51
4535707--4535832	60	2.1	60	85	5	166	31	21	5	41	1.76
4535970--4536128	59	2.7	59	82	5	176	42	5	20	32	1.73
4535973--4536147	59	2.9	59	79	5	156	42	4	19	33	1.72
4538117--4538213	51	1.9	51	87	4	142	48	14	6	30	1.68
4539727--4539791	2	33.5	2	93	6	116	50	0	0	49	1.00
4544790--4544917	24	5.3	23	75	13	107	44	14	18	21	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4545294--4545429	67	2.0	68	97	2	256	36	16	13	33	1.87
4547318--4547358	19	2.1	19	86	4	55	14	0	7	78	0.96
4549801--4549840	21	1.9	22	90	10	66	12	10	40	37	1.77
4549936--4550015	41	2.0	41	84	0	106	27	21	28	22	1.99
4550194--4550253	30	2.0	30	90	6	95	43	15	6	35	1.72
4551489--4551536	19	2.5	20	82	3	62	29	12	6	52	1.63
4552393--4552462	34	2.1	32	86	5	95	22	30	15	31	1.95
4552677--4552716	21	1.9	22	90	10	66	15	10	37	37	1.80
4552822--4552861	21	1.9	21	89	0	62	22	22	27	27	1.99
4552849--4552902	20	2.7	20	100	0	108	33	22	27	16	1.95
4552924--4553021	21	4.7	20	82	10	108	25	18	33	22	1.96
4553421--4553466	23	2.0	23	83	8	58	39	17	23	19	1.92
4556739--4556777	20	2.0	20	84	0	51	38	12	23	25	1.90
4558882--4558910	3	9.7	3	100	0	58	34	0	0	65	0.93
4560651--4560689	17	2.2	18	86	4	53	51	2	2	43	1.29
4562711--4562747	19	1.9	19	88	0	56	27	27	24	21	1.99
4563363--4563406	21	2.1	21	95	0	79	25	20	27	27	1.99
4563367--4563423	21	2.7	21	86	0	69	26	21	24	28	1.99
4563945--4563977	16	1.9	18	88	11	52	42	6	18	33	1.75
4565229--4565289	18	3.3	18	74	19	63	22	1	9	65	1.31
4573553--4573844	117	2.5	117	87	3	401	19	16	32	32	1.94
4578533--4578577	22	2.0	23	95	4	83	48	13	15	22	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4579960--4580058	29	3.4	29	81	5	121	31	8	20	40	1.81
4581003--4581284	110	2.5	110	84	8	358	18	15	34	31	1.93
4584247--4584314	36	1.9	35	85	5	93	47	4	1	47	1.31
4584954--4585076	35	3.5	35	83	8	169	21	21	19	38	1.94
4584957--4585097	71	2.0	71	90	2	221	19	20	18	41	1.91
4585083--4585123	21	2.0	21	85	0	55	12	31	2	53	1.51
4585422--4585450	15	1.9	15	100	0	58	34	27	13	24	1.93
4587795--4588935	574	2.0	574	95	0	2032	37	17	9	35	1.82
4588920--4589061	36	3.9	36	87	4	214	50	12	5	31	1.64
4588926--4589061	37	3.7	37	90	2	211	49	13	5	32	1.64
4590370--4592036	181	9.3	182	86	4	2375	43	13	15	26	1.84
4590369--4592036	363	4.6	363	92	2	2790	43	13	15	26	1.84
4592406--4592463	23	2.5	23	71	2	62	39	13	10	36	1.79
4592416--4592578	87	1.9	87	88	0	245	33	11	12	42	1.79
4592500--4592544	23	2.0	23	90	0	72	40	8	8	42	1.67
4600810--4600858	25	2.0	25	88	11	75	36	4	4	55	1.38
4601226--4601283	21	2.8	21	75	15	57	12	24	39	24	1.89
4601247--4601285	20	1.9	21	89	5	62	12	25	38	23	1.90
4610881--4611023	71	2.0	71	98	0	277	32	13	11	43	1.79
4611551--4611579	14	2.1	14	100	0	58	55	0	31	13	1.39
4613032--4613094	31	2.0	31	100	0	126	34	9	26	28	1.88
4614029--4614061	2	16.5	2	100	0	66	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4614220--4614322	39	2.6	39	78	17	124	52	1	10	34	1.47
4617410--4617459	3	17.7	3	88	12	79	32	0	0	68	0.90
4626221--4626303	42	2.0	42	90	0	130	31	18	18	32	1.94
4626343--4626367	13	1.9	13	100	0	50	32	24	20	24	1.98
4626906--4627265	53	6.8	53	85	3	433	30	21	26	21	1.98
4628546--4628598	3	17.7	3	100	0	106	32	0	0	67	0.91
4630527--4630561	2	17.5	2	100	0	70	48	0	0	51	1.00
4630633--4630659	2	13.5	2	100	0	54	48	0	0	51	1.00
4630600--4630643	23	2.0	22	81	4	52	34	0	4	61	1.16
4631897--4631936	21	1.9	21	84	0	53	17	10	0	72	1.11
4639357--4639469	59	1.9	60	83	5	149	49	12	24	13	1.76
4641387--4641441	2	30.5	2	76	20	59	50	1	0	47	1.11
4641387--4641441	25	2.1	25	87	12	76	50	1	0	47	1.11
4642491--4642523	16	1.9	18	88	11	52	36	0	3	60	1.12
4651475--4651535	32	1.9	31	83	3	77	24	9	24	40	1.85
4651838--4651862	12	2.1	12	100	0	50	40	0	0	60	0.97
4652101--4652138	19	2.1	19	85	5	51	39	5	0	55	1.23
4652270--4652352	32	2.6	32	92	0	130	13	13	27	45	1.80
4652213--4652348	16	8.5	16	69	3	85	10	12	30	46	1.75
4653910--4653946	17	2.2	17	86	13	51	54	0	8	37	1.30
4654750--4654796	21	2.2	21	84	0	58	61	0	8	29	1.25
4654758--4654797	21	1.9	21	94	0	71	57	0	10	32	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4656053--4656105	21	2.4	23	81	6	65	35	9	0	54	1.33
4659033--4659149	60	2.0	59	83	8	148	28	24	20	26	1.99
4662916--4663082	83	2.0	83	87	9	241	40	16	8	34	1.79
4663901--4663958	24	2.3	26	80	16	70	63	1	1	32	1.14
4663932--4663965	17	1.9	17	88	5	50	67	0	0	32	0.91
4665227--4665270	20	2.3	19	81	11	54	6	6	18	68	1.35
4665746--4665783	2	19.0	2	100	0	76	50	0	0	50	1.00
4669831--4672019	4	568.0	4	91	7	3693	49	25	0	24	1.51
4672401--4672455	21	2.6	21	97	0	101	21	1	34	41	1.64
4681639--4681719	22	3.7	22	76	0	90	32	24	18	24	1.97
4684606--4684651	20	2.3	20	92	3	76	36	23	0	39	1.55
4689453--4689599	70	2.1	69	84	5	188	33	26	14	25	1.94
4694056--4694098	20	2.2	20	100	0	86	32	13	32	20	1.92
4695630--4696024	199	2.0	199	98	1	769	34	11	17	36	1.86
4697159--4697211	23	2.3	23	86	0	79	22	39	18	18	1.92
4697148--4697225	23	3.5	22	77	5	75	25	29	25	19	1.98
4699406--4699469	24	2.5	26	85	10	96	34	0	35	29	1.58
4702083--4702130	23	2.0	24	92	4	80	33	12	10	43	1.77
4702634--4702711	7	11.0	7	84	1	93	20	2	23	53	1.57
4702633--4702711	21	3.7	21	91	1	131	20	3	22	53	1.62
4705423--4705480	29	2.0	29	89	0	89	87	1	10	0	0.60
4705431--4705480	1	50.0	1	79	0	55	90	0	10	0	0.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4708649--4708697	24	2.0	24	96	0	89	34	12	10	42	1.76
4709173--4709254	7	11.6	7	78	1	74	18	3	24	53	1.60
4709177--4709254	21	3.7	21	89	1	120	19	3	23	53	1.61
4709958--4710002	20	2.3	19	84	3	63	40	17	0	42	1.50
4711358--4711401	20	2.1	20	87	8	61	68	0	25	6	1.14
4715648--4716101	226	2.0	219	86	7	630	39	19	12	28	1.88
4720905--4720946	17	2.5	17	88	0	66	50	7	11	30	1.66
4721669--4721761	39	2.4	39	80	8	102	22	25	21	30	1.99
4726875--4727104	120	1.9	120	90	0	370	25	15	27	32	1.95
4761458--4761496	20	2.1	19	90	9	62	28	12	25	33	1.93

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