genome.fa.s8756.2.7.7.80.10.50.1000.18.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: VEPZ01008756.1 Hibiscus syriacus cultivar Beakdansim tig00111848_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4584045

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  18  of  21  ( 2443 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)
3900165--3900549	81	4.8	81	81	2	380	28	23	11	37	1.89
3900175--3900549	162	2.3	162	82	3	425	28	23	11	37	1.89
3900499--3900809	134	2.3	134	88	2	453	29	23	15	31	1.95
3900502--3900809	68	4.6	68	88	2	433	30	24	15	30	1.95
3900895--3901040	55	2.7	54	85	5	179	33	18	12	35	1.88
3901900--3901929	11	2.7	11	100	0	60	26	23	0	50	1.50
3902100--3902145	23	2.0	24	86	4	67	45	10	0	43	1.39
3902923--3902972	22	2.3	22	82	3	57	24	4	40	32	1.73
3907004--3907046	22	1.9	23	85	4	61	62	2	13	20	1.42
3911002--3911043	21	2.0	21	85	0	57	26	28	16	28	1.97
3911162--3911651	115	4.3	115	85	2	612	41	17	11	30	1.83
3911162--3911703	58	9.4	58	84	3	589	41	17	10	30	1.83
3923357--3923391	13	2.7	13	90	0	52	68	2	2	25	1.17
3936216--3936276	2	31.0	2	80	9	54	57	0	3	39	1.15
3936202--3936276	23	3.2	23	75	17	73	57	0	2	40	1.13
3936283--3936325	20	2.0	22	86	8	63	44	0	6	48	1.29
3936312--3936358	24	2.0	24	91	0	76	51	4	2	42	1.33
3936424--3936456	9	3.8	9	88	8	50	54	3	6	36	1.41
3936442--3936495	21	2.6	19	78	21	56	48	1	3	46	1.30
3936482--3936598	15	7.9	15	69	18	66	45	7	5	41	1.55
3936456--3936513	18	3.1	18	81	18	66	46	3	1	48	1.29
3936519--3936597	28	2.8	28	86	7	90	44	8	7	39	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3936529--3936598	13	5.1	13	82	7	77	47	7	5	40	1.55
3937227--3937259	9	3.8	9	88	4	50	48	3	0	48	1.17
3951606--3951704	20	4.8	20	73	20	87	46	7	5	41	1.53
3951622--3951749	13	9.7	13	75	9	64	46	8	4	40	1.55
3951711--3951749	14	2.8	14	88	0	51	46	7	7	38	1.61
3951681--3951749	28	2.4	27	85	7	84	44	8	5	40	1.59
3951729--3951769	21	2.0	21	90	0	64	41	7	4	46	1.53
3951809--3951910	36	2.8	36	80	1	123	42	5	6	45	1.55
3951906--3952002	16	6.2	16	72	20	71	43	6	4	46	1.47
3951921--3952015	45	2.1	44	84	11	122	44	7	3	45	1.47
3951921--3952035	45	2.5	45	80	10	110	46	6	2	44	1.42
3952031--3952144	6	19.0	6	70	15	51	46	2	1	49	1.26
3952018--3952145	31	4.0	30	72	17	98	46	2	1	49	1.24
3952095--3952146	21	2.5	20	82	17	63	48	0	1	50	1.12
3957987--3958040	23	2.3	23	87	3	81	46	9	0	44	1.35
3958697--3958728	16	2.0	16	93	0	55	59	18	6	15	1.57
3966898--3966942	22	2.1	21	83	4	54	11	26	4	57	1.52
3978733--3978832	7	14.3	7	74	17	75	45	0	2	53	1.12
3978733--3978855	2	64.0	2	72	19	93	43	0	4	50	1.29
3978733--3978827	9	11.5	8	76	17	79	45	0	1	53	1.07
3978734--3978825	36	2.5	36	81	11	107	45	0	1	53	1.07
3978733--3978832	27	4.0	26	82	13	113	45	0	2	53	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3980346--3980432	31	2.8	31	94	3	149	31	14	20	33	1.93
3982548--3982596	19	2.6	19	100	0	98	51	14	8	26	1.70
3983629--3983804	20	8.8	19	78	12	70	43	21	20	14	1.88
3983648--3983846	20	9.9	20	79	10	174	40	21	21	16	1.91
3983706--3983859	60	2.5	61	87	4	222	38	24	22	15	1.92
3983970--3983996	6	4.5	6	100	0	54	33	51	14	0	1.43
3984750--3984812	6	10.5	6	100	0	126	0	15	50	33	1.45
3984858--3984890	16	2.1	16	100	0	66	57	6	6	30	1.47
3984935--3985223	20	14.4	20	78	14	224	15	20	23	40	1.91
3984935--3985122	40	4.7	40	90	2	254	15	21	23	38	1.92
3985331--3985482	5	29.6	5	67	22	50	50	5	3	40	1.41
3985331--3985372	16	2.7	16	81	3	50	54	2	2	40	1.26
3985453--3985551	2	53.5	2	69	22	56	50	3	3	43	1.33
3985433--3985482	21	2.6	19	81	15	50	54	2	2	42	1.23
3985459--3985530	15	4.8	16	70	16	55	52	1	2	43	1.24
3989626--3989656	3	10.3	3	92	0	53	70	0	0	29	0.87
3990008--3990032	13	1.9	13	100	0	50	28	16	16	40	1.89
3991021--3991077	29	2.0	29	100	0	114	24	24	19	31	1.98
3992693--3992721	14	2.1	14	100	0	58	37	20	13	27	1.91
3993895--3994361	83	5.6	83	80	3	490	32	14	17	35	1.91
4001147--4001191	21	2.1	21	91	0	72	26	0	26	46	1.53
4003755--4003785	14	2.1	15	94	5	55	38	3	0	58	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4004778--4004854	6	12.8	6	100	0	154	50	32	0	16	1.46
4005480--4005588	31	3.3	31	70	18	94	50	11	11	26	1.72
4005501--4005681	37	5.2	36	65	20	125	47	11	12	28	1.76
4005468--4005742	68	4.0	68	93	0	469	48	12	12	27	1.76
4006790--4006903	53	2.2	53	86	0	156	36	18	16	28	1.93
4006924--4006999	24	3.2	23	69	7	71	50	17	10	22	1.76
4006919--4007018	48	2.1	48	92	0	164	49	19	10	22	1.77
4007543--4007580	20	1.9	20	94	0	67	26	26	10	36	1.89
4007899--4007942	20	2.1	21	83	4	54	45	29	2	22	1.65
4008934--4008971	20	1.9	20	89	10	60	34	31	21	13	1.91
4012685--4012718	17	2.0	17	100	0	68	23	17	5	52	1.66
4013183--4013521	43	7.9	43	84	2	394	33	22	14	29	1.94
4013180--4013521	129	2.6	128	87	3	454	34	22	14	28	1.93
4023152--4023231	36	2.2	37	82	6	101	35	12	35	17	1.88
4024157--4024181	10	2.5	10	100	0	50	24	0	0	76	0.80
4024251--4024305	22	2.4	23	78	6	58	23	5	5	65	1.35
4033979--4034182	75	2.7	75	86	2	259	23	31	24	21	1.98
4040328--4040368	19	2.2	19	83	16	50	31	0	14	53	1.41
4042455--4042664	75	2.8	74	84	6	242	22	32	23	20	1.98
4044489--4044523	13	2.7	13	90	0	61	88	0	0	11	0.51
4044487--4044523	17	2.1	18	90	5	58	89	0	0	10	0.49
4045029--4045099	24	3.0	24	91	0	106	39	16	21	22	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4046161--4046186	12	2.2	12	100	0	52	50	7	0	42	1.31
4050389--4050464	21	3.7	21	80	3	100	40	18	25	15	1.90
4050372--4050464	41	2.3	41	98	0	177	40	18	23	17	1.90
4050372--4050445	20	3.7	20	78	3	85	41	18	21	17	1.90
4050391--4050525	41	3.3	41	82	6	132	38	20	21	19	1.94
4050453--4050547	20	4.7	20	80	2	91	34	24	17	23	1.96
4050735--4050778	22	2.0	22	95	0	79	22	43	13	20	1.87
4051591--4051696	53	2.0	53	100	0	212	20	16	37	24	1.93
4051816--4051849	12	2.6	13	90	9	52	2	0	23	73	0.97
4051924--4051979	20	2.8	20	81	2	69	39	21	23	16	1.92
4051968--4052025	14	3.9	14	79	16	71	48	24	17	10	1.78
4051952--4052042	32	2.8	33	94	3	166	47	21	18	12	1.81
4051952--4052047	19	5.6	19	69	25	88	45	21	19	12	1.83
4052054--4052131	32	2.4	33	91	6	133	10	19	24	46	1.81
4052104--4052170	19	3.5	19	83	4	89	14	23	23	37	1.93
4052116--4052170	20	2.8	19	89	5	83	16	25	23	34	1.95
4054034--4054069	14	2.6	14	90	0	54	30	0	22	47	1.52
4054184--4054234	19	2.7	19	100	0	102	49	15	19	15	1.80
4054272--4054329	20	2.9	20	94	0	98	17	22	22	37	1.93
4058052--4058229	20	9.8	18	70	17	102	43	21	21	12	1.85
4058076--4058163	33	2.6	33	92	1	140	38	25	25	11	1.89
4058052--4058234	19	10.1	19	74	16	147	43	21	22	12	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4058230--4058274	19	2.4	19	92	0	72	8	15	26	48	1.74
4058830--4058882	20	2.7	20	93	0	88	26	20	28	24	1.99
4058889--4058944	20	2.8	20	94	0	94	26	17	21	33	1.96
4058933--4058983	20	2.5	20	83	0	66	17	25	19	37	1.94
4059014--4059054	21	2.0	21	85	0	55	34	31	17	17	1.93
4059224--4059255	2	16.0	2	100	0	64	50	0	0	50	1.00
4059586--4059628	16	2.7	16	80	20	54	67	9	0	23	1.19
4069503--4069545	20	2.2	20	83	8	52	34	16	13	34	1.88
4092128--4092165	19	2.0	19	89	0	58	21	26	10	42	1.85
4093540--4093745	95	2.2	95	86	1	288	33	15	23	27	1.95

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21