genome.fa.s7984.2.7.7.80.10.50.1000.35.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: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12923621

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   56   57   58   59   60   61   62   63   64   
          65   

This is table  35  of  65  ( 7696 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)
7164464--7164901	219	2.0	219	99	0	867	34	11	18	35	1.88
7164968--7165141	87	2.0	87	100	0	348	26	29	13	29	1.94
7186497--7186540	18	2.4	18	80	0	52	77	9	9	4	1.12
7197409--7197519	55	2.0	54	94	1	195	27	18	14	39	1.89
7202109--7202161	26	2.0	26	100	0	106	33	28	26	11	1.91
7207045--7207079	18	1.9	18	94	0	61	34	8	28	28	1.87
7227236--7227384	74	2.0	74	96	0	271	37	25	18	18	1.93
7234540--7234596	28	2.0	28	100	0	114	45	7	19	28	1.76
7241791--7241829	21	1.9	20	94	5	69	0	15	2	82	0.79
7241791--7241829	14	2.9	14	92	3	62	0	15	2	82	0.79
7241792--7241840	21	2.3	20	86	6	62	0	16	6	77	0.96
7241790--7241862	14	5.5	14	73	23	52	0	19	6	73	1.04
7242476--7242536	20	3.0	20	95	0	104	37	16	19	26	1.93
7247276--7247320	3	15.3	3	95	4	83	68	0	0	31	0.89
7248774--7248800	2	13.5	2	100	0	54	51	0	0	48	1.00
7249166--7249254	30	2.9	29	78	18	92	71	6	1	20	1.14
7249194--7249254	24	2.5	24	86	7	79	75	8	0	16	1.03
7249214--7249260	15	3.1	15	76	11	51	74	8	0	17	1.05
7249254--7249291	17	2.4	17	86	8	53	60	5	5	28	1.40
7249751--7250001	139	1.8	137	81	9	312	47	6	7	39	1.58
7250118--7250151	15	2.3	15	90	5	52	70	0	2	26	1.01
7250120--7250208	12	7.4	12	69	17	60	69	5	1	23	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7250214--7250251	17	2.4	17	86	8	53	60	5	5	28	1.40
7248364--7250292	959	2.0	965	93	2	3274	46	8	9	36	1.65
7251426--7251481	3	19.3	3	78	7	62	66	0	1	32	1.03
7251408--7251458	26	2.0	26	84	7	68	54	0	3	41	1.19
7251442--7251481	17	2.3	18	95	4	73	70	0	0	30	0.88
7251425--7251481	29	2.0	28	82	3	69	64	0	1	33	1.04
7252844--7252939	39	2.4	40	74	10	108	48	1	12	37	1.48
7259699--7259740	11	3.7	11	87	12	59	59	0	0	40	0.97
7264696--7264766	3	24.7	3	91	8	121	64	0	0	35	0.94
7264696--7264766	20	3.5	20	90	9	117	64	0	0	35	0.94
7264696--7264758	17	3.6	17	97	2	117	65	0	0	34	0.93
7264696--7264767	17	3.9	18	91	8	103	63	0	0	36	0.94
7264961--7265236	136	2.0	136	90	0	435	26	16	29	27	1.97
7265304--7265465	33	4.8	33	68	13	96	38	11	17	32	1.86
7265288--7265465	69	2.6	69	80	7	191	40	11	17	30	1.85
7265420--7265511	45	2.0	46	82	2	114	43	17	16	22	1.87
7265527--7265694	36	4.8	36	71	10	141	40	13	18	27	1.88
7265567--7265694	67	1.9	67	88	0	193	39	14	17	28	1.89
7267867--7267916	3	17.7	3	80	19	63	62	0	0	38	0.96
7267867--7267916	16	3.3	16	86	13	63	62	0	0	38	0.96
7267867--7267917	19	2.6	19	93	6	84	60	0	0	39	0.97
7268104--7268330	48	4.9	48	71	10	166	28	15	29	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7268106--7268381	136	2.0	136	87	2	394	27	14	30	27	1.95
7268447--7268610	69	2.4	68	85	6	206	39	10	17	32	1.83
7268447--7268610	33	4.8	35	68	11	115	39	10	17	32	1.83
7268678--7268764	36	2.4	36	90	0	129	37	13	24	24	1.91
7268712--7268839	67	1.9	67	87	3	186	38	13	17	30	1.88
7269668--7269710	21	2.0	21	81	0	50	30	30	25	13	1.94
7269690--7269840	67	2.3	67	94	0	257	29	29	27	14	1.95
7269804--7269841	20	1.9	20	94	0	67	23	36	31	7	1.84
7270319--7270622	149	2.0	149	98	0	590	27	17	20	35	1.94
7270601--7270645	23	2.0	23	86	0	63	20	24	28	26	1.99
7271669--7271879	113	1.9	113	85	2	289	23	17	24	34	1.96
7271796--7271952	65	2.4	66	89	1	244	26	15	24	33	1.96
7271841--7271949	34	3.3	34	70	12	100	26	15	24	33	1.95
7273721--7273759	15	2.5	15	87	4	51	5	12	7	74	1.20
7273929--7274005	2	38.5	2	97	0	145	50	1	0	48	1.09
7276430--7276455	6	4.3	6	100	0	52	50	0	0	50	1.00
7278511--7278566	3	19.7	3	89	10	91	64	0	0	35	0.94
7278511--7278566	17	3.3	17	95	5	96	64	0	0	35	0.94
7278511--7278561	20	2.5	20	100	0	102	64	0	0	35	0.94
7278940--7279042	30	3.5	30	93	1	172	26	16	20	36	1.93
7280044--7280135	6	15.7	6	72	15	59	76	0	3	20	0.93
7280051--7280140	13	7.1	13	71	14	71	76	0	3	20	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7280050--7280140	26	3.6	26	76	18	102	75	0	3	20	0.94
7280046--7280138	31	3.0	30	78	20	93	76	0	3	20	0.93
7280046--7280177	49	2.6	48	80	18	126	71	0	6	21	1.08
7280996--7281374	67	5.5	67	70	12	225	37	11	20	31	1.87
7281154--7281212	31	1.9	31	85	0	82	35	10	16	37	1.83
7281178--7281269	38	2.5	37	87	5	132	30	6	17	45	1.73
7281324--7281706	36	11.1	36	63	21	108	40	12	19	27	1.87
7281257--7281706	102	4.4	102	84	2	528	40	12	19	27	1.87
7281296--7281688	203	1.9	204	86	1	556	41	11	19	27	1.86
7281627--7281714	36	2.4	37	86	1	115	36	9	22	31	1.86
7282223--7282285	32	2.0	32	87	0	90	31	23	12	31	1.92
7283326--7283389	15	4.1	15	80	13	67	0	6	10	82	0.82
7283348--7283403	18	2.9	19	86	10	78	0	3	12	83	0.76
7283341--7283403	25	2.6	24	80	11	74	0	3	12	84	0.75
7283341--7283403	10	5.9	10	80	16	65	0	3	12	84	0.75
7283341--7283412	31	2.3	30	83	9	83	0	5	11	83	0.80
7283349--7283412	20	3.3	19	85	12	78	0	6	10	82	0.82
7286444--7286531	13	6.8	13	71	18	53	72	0	3	23	0.99
7286444--7286534	11	7.2	12	75	17	69	73	0	3	23	0.98
7290696--7290808	60	1.9	60	83	3	147	42	4	21	31	1.72
7291357--7291429	24	3.0	24	84	4	58	10	13	24	50	1.74
7291367--7291423	14	4.4	14	76	17	59	8	12	24	54	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7291368--7291442	24	3.1	24	88	3	89	12	10	21	56	1.66
7292166--7292226	16	3.8	16	91	0	104	9	13	21	55	1.66
7292306--7292338	16	2.1	16	100	0	66	6	12	24	57	1.57
7293293--7293333	16	2.6	16	76	0	55	58	0	0	41	0.98
7293627--7293666	21	1.9	21	89	0	62	30	5	22	42	1.75
7294700--7294747	22	2.2	22	84	0	60	20	22	22	33	1.97
7297192--7297234	14	3.2	13	83	9	50	41	23	0	34	1.55
7300125--7300193	23	3.0	23	77	8	68	31	24	21	21	1.98
7300209--7300426	103	2.1	103	94	0	382	36	23	13	26	1.92
7300875--7301002	64	2.0	67	87	7	192	28	17	19	34	1.95
7300887--7301047	64	2.5	63	81	5	171	28	19	18	34	1.95
7303513--7303559	18	2.6	18	93	0	76	19	17	8	55	1.67
7305312--7305759	105	4.3	106	90	3	649	32	16	11	39	1.84
7305312--7305759	212	2.1	209	89	3	668	32	16	11	39	1.84
7305935--7306021	29	3.2	27	81	14	108	32	8	13	45	1.73
7305992--7306402	62	6.5	62	70	17	253	30	14	13	41	1.84
7305991--7306402	63	6.6	62	71	15	260	31	14	13	41	1.84
7306255--7306342	30	3.0	30	81	6	108	30	13	11	44	1.79
7306183--7306342	30	5.1	29	74	13	106	31	15	11	40	1.84
7306371--7306447	28	2.8	27	79	13	102	29	9	14	46	1.75
7306912--7306988	29	2.7	29	89	2	120	22	11	11	54	1.68
7306965--7307125	63	2.5	63	87	4	223	27	12	14	45	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7307176--7307438	134	2.0	134	87	3	377	27	31	16	24	1.97
7307206--7307495	134	2.2	134	81	4	336	26	33	16	23	1.95
7307723--7307758	3	12.3	3	94	5	65	30	0	0	69	0.89
7313141--7313234	22	4.2	22	76	15	86	34	26	15	23	1.95
7313374--7313404	7	4.3	7	95	4	53	29	25	0	45	1.54
7317248--7317277	12	2.4	13	88	11	53	53	0	0	46	1.00
7318932--7318996	32	2.1	32	91	2	105	49	7	9	33	1.63
7319183--7319259	33	2.4	32	85	8	111	44	15	9	31	1.78
7319248--7319289	21	2.0	21	95	0	75	47	7	14	30	1.71
7320693--7320756	31	2.1	31	90	0	101	50	7	9	32	1.64

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   56   57   58   59   60   61   62   63   64   
          65