genome.fa.s1465.2.7.7.80.10.50.1000.24.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: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11160956

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   55   

This is table  24  of  55  ( 6520 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)
4627919--4627957	10	3.3	12	86	13	55	28	7	0	64	1.21
4629982--4630455	242	2.0	242	94	0	840	34	9	22	33	1.86
4631172--4631219	25	1.9	25	86	0	69	54	14	8	22	1.67
4631509--4631579	37	1.9	37	88	5	108	25	7	30	36	1.83
4635218--4635304	41	2.1	41	85	4	113	47	20	5	26	1.73
4639483--4639560	22	3.5	22	83	0	102	30	15	24	29	1.95
4641865--4641923	21	2.8	22	82	7	68	50	0	0	49	1.00
4641893--4641947	26	2.1	26	83	6	67	52	1	1	43	1.22
4645145--4646451	138	9.5	138	90	2	1991	23	20	21	34	1.97
4645144--4646451	413	3.2	413	91	1	2084	23	20	21	34	1.97
4645145--4646456	551	2.4	552	90	1	2073	23	20	21	34	1.97
4646609--4646658	23	2.2	23	82	7	57	52	0	18	30	1.46
4646733--4646763	14	2.2	14	94	0	53	29	0	12	58	1.35
4646884--4646956	34	2.1	34	97	0	137	35	2	6	54	1.41
4647459--4647527	21	3.3	21	80	8	77	24	23	30	21	1.99
4647530--4647612	42	2.0	42	87	0	121	24	18	34	22	1.96
4649166--4649211	25	1.9	23	91	8	74	63	2	0	34	1.07
4649166--4649221	23	2.4	25	85	11	75	64	1	0	33	1.04
4649318--4649417	31	3.3	31	79	8	82	60	0	0	40	0.97
4649620--4649769	60	2.5	60	83	4	194	21	36	27	15	1.93
4651347--4651388	18	2.3	18	100	0	84	26	28	7	38	1.82
4663339--4663391	20	2.6	21	76	8	65	28	28	15	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4663336--4663459	60	2.1	60	81	3	142	35	23	16	24	1.95
4663420--4663459	20	2.0	20	85	9	55	42	25	17	15	1.88
4663592--4663656	22	3.0	22	90	0	94	26	40	10	23	1.87
4663915--4663961	20	2.4	20	89	3	69	48	23	17	10	1.77
4663961--4663999	20	2.0	20	84	0	51	15	20	17	46	1.84
4665491--4665591	42	2.4	42	96	0	184	22	37	21	17	1.94
4666141--4666189	21	2.3	22	86	10	75	26	30	14	28	1.95
4666197--4666259	21	3.0	21	73	0	63	15	41	23	19	1.90
4667666--4667705	14	2.9	14	80	0	53	30	0	17	52	1.45
4667616--4667755	66	2.2	62	86	7	185	30	0	17	51	1.50
4668069--4668155	39	2.2	39	91	0	138	17	14	19	48	1.81
4668531--4668580	25	2.0	25	96	0	91	44	22	8	26	1.80
4671528--4671561	12	2.8	12	90	0	50	14	0	29	55	1.40
4672342--4672395	20	2.7	20	75	11	65	27	14	29	27	1.95
4674168--4674250	25	3.5	25	66	12	75	24	19	2	54	1.56
4684377--4685180	22	36.6	22	89	1	1229	48	12	0	39	1.44
4685167--4685206	12	3.6	12	77	16	50	52	0	2	45	1.14
4688677--4688712	11	3.5	11	85	14	58	25	33	0	41	1.55
4688674--4688712	20	2.0	20	100	0	78	30	30	0	38	1.58
4695746--4695838	46	2.0	46	89	2	143	40	2	4	52	1.33
4703606--4703709	38	2.9	37	73	19	94	44	1	0	53	1.11
4704335--4704376	8	5.6	8	88	11	54	21	0	7	71	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4704639--4704699	26	2.3	27	91	5	106	47	13	4	34	1.64
4707120--4707188	32	2.2	32	86	0	93	26	21	26	26	2.00
4707740--4707785	6	7.8	6	97	2	85	0	65	0	34	0.93
4716496--4716520	2	12.5	2	100	0	50	48	0	0	52	1.00
4722306--4722659	186	1.9	186	94	0	627	46	9	3	40	1.53
4722623--4722683	18	3.3	18	77	8	59	42	1	0	55	1.09
4725525--4725559	3	11.7	3	100	0	70	65	0	0	34	0.93
4726265--4726317	3	17.7	3	100	0	106	66	0	0	33	0.92
4728125--4728157	16	2.1	16	100	0	66	57	24	12	6	1.57
4728223--4728297	10	7.7	10	69	21	61	57	21	12	9	1.62
4728227--4728291	16	4.1	16	95	0	121	56	23	12	7	1.61
4729043--4729098	14	4.3	14	76	17	66	53	23	12	10	1.69
4729023--4729097	24	3.1	24	86	3	98	56	20	10	13	1.66
4732162--4732224	13	4.8	12	78	16	63	76	4	14	4	1.12
4733862--4734055	64	3.0	64	92	3	327	34	22	12	30	1.91
4733992--4734289	149	2.0	153	85	4	406	36	21	14	27	1.93
4734397--4734602	83	2.4	85	85	3	265	33	20	19	26	1.97
4737044--4737080	18	2.0	19	94	5	67	21	2	10	64	1.37
4738261--4738300	14	3.1	14	75	17	50	57	0	0	42	0.98
4740184--4740223	19	2.2	19	86	4	55	40	0	0	60	0.97
4745992--4746060	25	2.8	25	78	6	79	62	7	4	26	1.40
4746693--4746758	3	21.7	3	90	6	98	28	0	0	71	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4747001--4747035	18	1.9	18	88	0	52	65	22	0	11	1.24
4753326--4753547	122	1.8	122	98	0	426	35	19	22	23	1.96
4754779--4754809	2	15.5	2	93	0	53	0	45	0	54	0.99
4755157--4755346	94	2.0	94	100	0	380	25	12	7	54	1.64
4761100--4761147	3	16.3	3	95	4	89	31	0	0	68	0.90
4762240--4762264	13	1.9	13	100	0	50	16	0	12	72	1.13
4762894--4762986	26	3.6	27	70	16	72	29	5	2	63	1.28
4763205--4763451	125	2.0	127	92	3	419	36	6	9	48	1.60
4768479--4768620	72	2.0	72	88	2	214	28	18	17	35	1.94
4773767--4773899	45	2.9	44	84	6	167	24	23	18	33	1.97
4773912--4774013	45	2.3	45	87	0	150	25	20	20	33	1.97
4773791--4774099	121	2.5	121	88	1	438	25	20	20	33	1.96
4773955--4774249	76	3.9	76	89	0	423	24	19	21	34	1.96
4773834--4774362	273	1.9	273	91	0	851	24	19	20	34	1.96
4774183--4774296	45	2.5	45	84	2	138	24	20	21	34	1.97
4774107--4774393	121	2.4	121	90	0	457	24	21	20	34	1.97
4774304--4774398	45	2.1	45	92	0	154	25	22	18	33	1.97
4774399--4774453	20	2.8	20	91	0	92	25	30	21	21	1.98
4774590--4774649	18	3.4	18	81	6	70	40	0	0	60	0.97
4774588--4774640	3	18.3	3	84	7	65	35	0	0	64	0.94
4776410--4776498	11	8.2	11	68	20	53	31	5	1	61	1.26
4776705--4776955	126	2.0	128	96	1	470	35	7	8	48	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4782763--4782839	37	2.1	37	100	0	154	49	7	16	25	1.73
4782823--4782848	13	2.0	13	100	0	52	61	0	15	23	1.33
4786896--4786936	17	2.4	17	88	8	57	14	29	2	53	1.54
4787790--4787841	21	2.5	21	87	0	77	34	9	25	30	1.88
4789005--4789045	2	20.5	2	100	0	82	48	0	0	51	1.00
4789097--4789161	22	3.0	23	77	8	82	30	21	20	27	1.98
4791024--4791081	20	2.7	20	81	10	62	29	22	17	31	1.96
4791089--4791190	45	2.3	44	79	5	107	27	21	15	35	1.94
4793150--4793406	131	2.0	131	96	1	480	25	13	8	52	1.69
4793538--4793824	43	6.7	43	73	11	196	25	20	7	46	1.76
4793840--4793936	45	2.2	45	85	7	135	28	18	3	49	1.63
4800961--4800994	17	2.0	17	88	0	50	64	5	0	29	1.17
4801182--4801224	21	2.0	21	100	0	86	53	4	0	41	1.21
4803310--4803359	21	2.4	21	80	6	57	32	30	16	22	1.95
4803963--4804043	42	1.9	42	94	0	144	23	17	23	35	1.95
4813918--4813970	27	2.0	27	85	7	72	54	0	0	45	0.99
4829764--4829808	20	2.4	18	82	13	63	20	26	6	46	1.75
4829773--4829820	20	2.4	20	85	0	69	29	20	4	45	1.70
4833033--4833084	22	2.5	21	75	6	52	67	1	9	21	1.29
4835806--4835854	17	2.8	17	90	3	71	24	26	14	34	1.94
4837222--4837382	60	2.7	59	80	4	182	34	21	18	26	1.96
4838178--4838207	15	2.0	15	93	0	51	16	26	30	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4841458--4841610	60	2.6	59	86	4	209	33	22	18	24	1.97
4843743--4843796	18	3.3	18	73	24	64	18	48	20	12	1.81
4843783--4843811	8	3.8	8	90	9	51	13	37	27	20	1.91
4843747--4843783	13	2.8	13	83	0	56	18	45	21	13	1.84
4845106--4845141	18	2.0	18	88	0	54	52	0	16	30	1.44
4846278--4846337	23	2.6	23	91	0	84	25	13	20	41	1.88
4846328--4846377	24	2.1	24	85	7	66	32	10	18	40	1.83
4846445--4846519	35	2.1	35	95	0	132	9	29	29	32	1.88
4848196--4848225	13	2.4	13	94	5	53	46	23	0	30	1.52
4851596--4851629	14	2.4	14	90	5	50	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   55