genome.fa.s8027.2.7.7.80.10.50.1000.35.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: VEPZ01008027.1 Hibiscus syriacus cultivar Beakdansim tig00110503_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7662336

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  35  of  38  ( 4505 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)
7086270--7086359	28	3.0	29	80	13	87	48	1	1	48	1.15
7086291--7086363	14	5.3	14	67	8	51	46	1	1	50	1.18
7084525--7087706	791	4.0	790	94	2	5270	38	8	8	44	1.66
7087193--7087226	14	2.3	15	85	5	52	38	0	5	55	1.24
7087270--7087333	24	2.7	24	92	2	112	25	10	4	59	1.50
7089106--7089175	28	2.5	28	90	0	104	28	14	28	28	1.95
7089134--7089344	54	3.9	54	80	3	201	34	19	20	25	1.96
7089239--7089310	28	2.7	25	77	16	74	41	20	18	19	1.90
7089325--7089452	55	2.3	55	81	6	143	26	16	24	32	1.96
7095503--7095532	2	15.0	2	100	0	60	50	0	0	50	1.00
7095768--7095819	3	17.3	3	92	7	88	69	0	0	30	0.89
7096166--7096215	21	2.3	23	82	10	68	26	30	20	24	1.98
7096577--7096640	18	3.6	18	75	12	69	37	18	4	39	1.72
7096930--7096987	22	2.7	22	89	2	91	25	24	17	32	1.96
7099118--7099261	75	1.9	75	84	8	184	27	7	13	50	1.69
7100544--7100685	44	3.2	44	88	0	221	33	15	16	34	1.91
7100543--7100665	24	5.5	24	64	14	82	34	14	17	34	1.90
7103334--7103370	15	2.5	15	95	0	65	43	16	13	27	1.85
7106372--7106406	17	2.1	16	89	5	52	54	0	2	42	1.15
7106396--7106431	18	2.1	18	94	5	65	44	5	0	50	1.25
7106400--7106504	15	6.9	15	69	18	56	43	5	4	45	1.48
7106397--7106442	18	2.5	17	83	13	56	47	4	0	47	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7106451--7106600	68	2.2	68	79	11	155	45	3	7	44	1.48
7106944--7107020	19	3.7	22	81	13	76	45	6	5	42	1.52
7106970--7107020	19	2.6	19	90	9	77	47	7	1	43	1.43
7106990--7107027	17	2.4	15	91	8	58	47	7	0	44	1.32
7107793--7108245	228	2.0	228	98	0	879	38	18	18	23	1.93
7110157--7110223	16	4.2	16	82	0	80	41	10	25	22	1.85
7110161--7110227	32	2.1	32	85	0	89	38	10	25	25	1.87
7113501--7113658	65	2.4	63	78	12	169	26	18	23	31	1.98
7114570--7114608	19	2.1	19	100	0	78	33	20	10	35	1.86
7116276--7116347	21	3.5	20	72	12	56	23	19	26	30	1.98
7123315--7123421	30	3.7	28	78	8	83	58	0	0	41	0.98
7123389--7123432	24	1.9	22	81	9	52	61	0	0	38	0.96
7124588--7124662	27	2.8	27	97	0	141	33	25	12	29	1.92
7124876--7124949	30	2.5	30	84	2	96	13	33	24	28	1.93
7125516--7125566	26	2.0	26	84	7	68	74	7	7	9	1.22
7125550--7125594	15	3.0	14	87	12	63	80	2	2	15	0.92
7125705--7125799	36	2.6	37	76	14	99	68	5	5	21	1.29
7125781--7125850	26	2.7	25	78	10	70	72	1	2	22	1.05
7125926--7125963	14	2.7	14	84	8	51	71	0	0	28	0.87
7127365--7127410	20	2.3	20	96	0	83	28	10	32	28	1.91
7128330--7128503	65	2.6	65	86	4	233	39	9	18	32	1.83
7128330--7128486	67	2.4	66	88	5	228	39	10	17	32	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7128651--7128721	37	1.9	37	88	0	106	40	12	21	25	1.88
7134946--7135009	26	2.5	25	85	7	85	70	0	4	25	1.06
7135016--7135060	23	2.0	21	83	8	54	66	2	2	28	1.15
7135037--7135068	16	2.0	17	88	11	50	68	0	0	31	0.90
7135101--7135147	25	2.0	23	83	8	58	59	0	4	36	1.17
7135653--7135707	23	2.4	23	100	0	110	3	9	40	47	1.53
7136161--7136211	10	5.5	10	73	17	56	58	0	0	41	0.98
7136159--7136211	18	2.9	18	97	0	97	58	0	0	41	0.98
7136343--7136456	29	3.9	29	97	2	212	14	38	28	18	1.90
7136486--7136550	31	2.1	31	97	0	121	3	27	32	36	1.72
7136706--7136794	29	3.2	26	90	6	99	19	24	37	19	1.94
7136724--7136794	29	2.4	29	100	0	142	21	25	35	18	1.95
7136788--7136812	12	2.1	12	100	0	50	16	0	60	24	1.36
7137321--7137364	21	2.1	21	91	0	70	29	0	15	54	1.42
7137764--7137796	17	1.9	17	88	11	50	12	3	12	72	1.23
7138163--7138227	26	2.6	25	79	13	62	50	6	1	41	1.36
7141076--7141112	11	3.4	11	92	0	65	54	0	8	37	1.30
7141136--7141844	14	51.3	14	71	20	292	42	2	8	47	1.47
7141176--7141211	11	3.4	11	88	3	56	36	0	5	58	1.22
7141211--7141374	33	4.9	33	80	17	203	43	3	7	45	1.51
7141198--7141383	74	2.5	75	88	9	278	43	3	7	45	1.48
7141127--7141814	135	5.2	131	78	14	580	41	2	8	47	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7141431--7141637	26	8.3	26	72	13	141	42	1	8	46	1.45
7141457--7141704	72	3.6	72	76	16	288	41	1	9	47	1.43
7141720--7141814	47	2.0	46	91	2	154	42	4	7	46	1.51
7141067--7141871	393	2.1	385	83	10	1012	42	2	8	46	1.48
7144004--7144034	15	2.1	14	94	5	53	54	6	0	38	1.26
7144009--7144055	16	3.0	16	84	9	53	59	10	0	29	1.31
7144096--7144177	34	2.5	34	84	9	100	48	12	0	39	1.41
7144218--7144309	46	2.0	48	87	8	136	46	11	0	41	1.41
7144218--7144322	47	2.2	48	85	10	135	47	12	0	40	1.41
7144290--7144378	41	2.2	40	78	8	90	46	10	1	42	1.45
7144776--7144867	29	3.2	29	93	0	148	22	31	29	16	1.96
7144934--7144972	20	2.0	20	94	0	69	12	17	30	38	1.88
7144934--7144973	9	4.2	9	81	12	53	12	17	32	37	1.87
7144960--7145005	21	2.2	21	92	3	76	13	28	26	32	1.93
7145006--7145065	29	2.1	29	96	0	111	18	28	28	25	1.98
7145588--7145777	31	6.1	31	79	4	159	42	13	5	38	1.66
7145625--7145777	62	2.5	62	80	4	175	43	12	5	38	1.67
7145579--7145777	93	2.1	93	83	3	240	41	13	5	39	1.68
7145838--7145872	18	1.9	18	94	0	61	42	0	2	54	1.15
7145833--7145888	15	3.7	15	76	17	53	46	0	1	51	1.11
7147554--7147598	22	2.0	24	86	8	67	17	33	15	33	1.92
7155183--7155220	15	2.5	15	95	0	67	42	0	7	50	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7165359--7165464	31	3.3	31	74	14	115	36	21	21	19	1.95
7165342--7165469	66	1.9	66	90	0	202	35	20	23	21	1.96
7167647--7167707	28	2.2	28	93	0	104	27	21	31	19	1.97
7168156--7168191	14	2.3	17	81	18	51	72	0	0	27	0.85
7168153--7168191	16	2.7	14	88	11	53	69	0	0	30	0.89
7168984--7169078	42	2.3	42	86	0	127	22	10	13	53	1.70
7169267--7169326	32	1.9	31	86	10	86	45	0	0	55	0.99
7169285--7169387	54	1.9	52	84	11	138	48	0	0	49	1.14
7169266--7169436	29	5.8	29	71	17	111	45	0	1	52	1.12
7169439--7169483	23	2.0	23	86	0	63	53	2	2	42	1.25
7176076--7176120	24	1.9	24	86	4	65	31	17	13	37	1.89
7177785--7177857	24	3.0	23	80	11	85	57	16	10	15	1.65
7178051--7178107	14	4.1	14	83	0	69	64	12	7	15	1.47
7178034--7178115	24	3.0	27	76	20	91	60	15	8	14	1.57
7178034--7178115	28	3.0	27	74	20	82	60	15	8	14	1.57
7178351--7178379	4	7.2	4	100	0	58	75	0	0	24	0.80
7178377--7178467	2	45.5	2	100	0	182	50	0	0	49	1.00
7190035--7190284	42	6.0	42	77	8	188	50	6	17	26	1.70
7190067--7190284	42	5.2	43	80	4	212	51	5	16	25	1.67
7190067--7190303	43	5.6	43	79	7	234	51	5	16	27	1.67
7192090--7192135	22	2.0	23	91	4	76	30	2	15	52	1.55
7195645--7195687	9	4.7	9	82	2	50	76	4	4	13	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7195645--7195687	18	2.3	19	88	4	61	76	4	4	13	1.10
7195929--7195954	12	2.2	12	100	0	52	50	7	0	42	1.31
7201900--7201935	18	2.0	18	100	0	72	27	16	27	27	1.97
7204215--7204346	36	3.7	36	77	0	120	38	15	12	33	1.85
7205148--7205201	19	2.8	19	83	5	56	40	22	3	33	1.71
7205703--7205760	26	2.3	25	88	5	82	43	32	1	22	1.64
7205716--7205766	26	2.0	26	96	0	93	43	31	1	23	1.65
7208117--7208379	43	6.1	43	77	1	170	23	15	25	36	1.94
7208431--7208526	44	2.2	45	86	5	142	31	15	20	32	1.94
7208869--7208935	21	3.2	21	84	0	89	2	37	17	41	1.65

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