genome.fa.s9463.2.7.7.80.10.50.1000.16.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: VEPZ01009463.1 Hibiscus syriacus cultivar Beakdansim tig00113726_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3931635

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

This is table  16  of  20  ( 2327 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)
3136589--3136618	12	2.5	12	94	0	51	33	33	26	6	1.83
3138579--3138628	11	4.5	11	80	16	50	70	4	0	26	1.05
3138664--3138700	11	3.3	11	88	7	56	45	8	5	40	1.56
3138664--3138700	12	3.2	12	92	3	58	45	8	5	40	1.56
3138710--3138777	32	2.2	31	89	5	102	42	11	2	42	1.56
3138682--3138816	68	2.0	71	89	5	215	42	11	2	42	1.53
3138705--3139039	38	8.6	38	68	19	144	43	9	2	44	1.52
3138841--3138874	2	17.0	2	100	0	68	50	0	0	50	1.00
3138772--3138947	89	2.0	86	79	12	187	43	7	2	46	1.47
3138860--3139044	76	2.4	78	84	9	231	44	9	3	43	1.52
3139001--3139052	24	2.1	25	89	7	79	42	7	1	48	1.43
3147165--3147235	37	1.9	37	91	0	115	43	22	9	23	1.83
3147174--3147235	21	3.2	20	68	29	53	45	22	9	22	1.81
3156321--3156521	72	2.8	71	81	8	226	29	13	13	43	1.83
3157668--3157712	23	2.0	23	86	0	63	62	2	2	33	1.20
3157693--3157768	29	2.8	27	76	11	77	63	2	7	26	1.35
3158949--3159039	3	29.7	3	78	8	58	58	2	0	39	1.10
3158951--3159039	16	5.6	16	70	11	58	57	2	0	40	1.11
3159363--3159459	45	2.2	45	92	0	158	34	18	21	25	1.96
3159290--3159511	119	1.9	119	85	0	309	32	19	20	27	1.97
3159491--3159553	21	2.9	23	68	15	62	17	23	23	34	1.96
3159533--3159672	45	3.1	45	87	6	194	33	21	22	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3159364--3159780	208	2.0	208	89	1	633	29	21	22	26	1.99
3159922--3160015	45	2.1	45	88	4	136	27	18	22	31	1.97
3159570--3160240	119	5.7	119	89	3	878	30	20	21	27	1.98
3160041--3160134	45	2.1	45	89	0	143	27	19	23	29	1.98
3160903--3161037	22	6.1	22	92	3	193	37	13	15	33	1.86
3160903--3161037	66	2.0	66	92	0	225	37	13	15	33	1.86
3162401--3162539	42	3.3	41	71	12	104	29	21	15	33	1.95
3164365--3164428	17	3.8	16	82	10	83	1	18	0	79	0.81
3164365--3164427	9	7.5	8	84	11	74	1	17	0	80	0.78
3164351--3164428	27	3.0	25	80	15	88	1	20	0	78	0.83
3164351--3164390	13	2.9	14	88	7	64	0	20	0	80	0.72
3164350--3164428	7	11.0	7	74	12	63	1	20	0	78	0.82
3167234--3167325	34	2.6	34	81	11	98	59	8	11	19	1.58
3167481--3167567	43	2.0	44	81	2	104	34	21	11	32	1.89
3168014--3168084	35	2.0	36	86	2	99	30	8	21	39	1.83
3173234--3173268	18	1.9	18	88	0	52	14	28	31	25	1.95
3178331--3178372	19	2.2	19	95	0	75	38	19	19	23	1.93
3179539--3179580	13	3.1	13	83	12	57	59	2	2	35	1.23
3179560--3179635	29	2.8	27	76	11	77	63	3	5	27	1.34
3179847--3179872	5	5.2	5	100	0	52	76	0	0	23	0.78
3180877--3180939	3	20.7	3	86	3	72	58	0	0	41	0.98
3181140--3181180	22	2.0	21	85	9	57	31	17	0	51	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3183142--3183813	214	3.2	214	87	6	1005	49	8	11	30	1.70
3183142--3183834	203	3.3	212	86	7	971	49	9	11	30	1.69
3183911--3184125	2	110.5	2	68	18	116	46	3	2	47	1.35
3183911--3184125	9	23.0	9	69	22	92	46	3	2	47	1.35
3184260--3184416	22	7.2	22	64	23	66	43	7	7	40	1.62
3184273--3184356	13	6.5	13	65	17	50	48	7	5	38	1.55
3184239--3184350	42	2.7	42	94	5	194	46	8	6	39	1.59
3184273--3184396	64	1.9	64	86	3	178	45	8	6	39	1.59
3184367--3184447	24	3.2	24	78	13	67	40	7	7	44	1.60
3184260--3184416	64	2.4	62	76	10	154	43	7	7	40	1.62
3184424--3184713	2	145.0	2	63	21	56	46	4	5	44	1.45
3184485--3184596	17	6.5	17	68	18	61	45	2	4	47	1.37
3184485--3184524	11	4.2	10	78	21	50	42	2	0	55	1.13
3184652--3184707	30	1.9	28	85	7	76	48	1	7	42	1.41
3184502--3184677	87	2.0	86	85	4	239	46	3	6	43	1.45
3184826--3184930	20	5.2	21	74	19	91	42	7	7	41	1.62
3184844--3184886	17	2.4	17	84	7	50	46	9	4	39	1.57
3184805--3184927	59	2.0	61	84	6	162	42	8	7	42	1.62
3184970--3185022	21	2.5	21	87	0	79	39	7	5	47	1.56
3184969--3185132	21	7.6	21	66	18	70	40	6	5	47	1.51
3184991--3185170	88	2.0	89	84	7	233	40	4	5	49	1.46
3185004--3185233	88	2.6	87	78	12	211	42	4	4	48	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3184969--3185185	110	2.0	109	79	7	233	41	5	5	48	1.48
3185190--3185243	6	9.3	6	80	15	53	50	0	1	48	1.11
3185179--3185259	13	6.5	13	75	16	64	48	2	2	46	1.28
3185215--3185276	19	3.2	18	77	22	63	48	0	1	50	1.10
3187563--3187617	23	2.4	23	81	0	65	21	10	27	40	1.87
3188193--3188230	13	2.8	13	82	17	51	60	0	2	36	1.11
3188209--3188292	18	4.5	18	76	12	71	59	2	4	33	1.31
3191924--3192055	64	2.1	64	81	4	151	36	12	15	36	1.84
3193801--3193960	65	2.5	65	82	5	182	31	21	18	27	1.97
3197283--3197322	21	1.9	22	90	10	66	12	10	40	37	1.77
3197425--3197498	20	3.7	20	81	3	94	29	24	27	18	1.98
3197656--3197713	30	2.0	29	90	10	91	44	17	5	32	1.70
3197656--3197714	29	2.0	30	93	6	102	44	16	5	33	1.70
3198988--3199035	19	2.5	20	82	3	62	29	12	6	52	1.63
3199893--3199961	34	2.1	34	83	5	88	21	27	15	34	1.94
3200177--3200216	21	1.9	22	90	10	66	12	10	40	37	1.77
3200335--3200444	20	5.4	20	83	4	148	30	24	27	18	1.98
3200335--3200460	41	3.1	41	97	0	234	29	24	26	19	1.99
3200347--3200460	21	5.5	21	82	4	151	28	24	25	21	1.99
3200492--3200546	22	2.7	19	79	17	65	21	21	30	25	1.98
3200499--3200541	22	1.9	23	90	4	70	20	20	27	30	1.98
3200631--3200698	29	2.3	29	80	12	84	45	14	5	33	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3203428--3203479	20	2.6	20	100	0	104	28	28	25	17	1.97
3206783--3206862	30	2.9	27	85	12	94	37	12	12	37	1.81
3206771--3206853	30	2.8	30	98	0	157	37	12	13	37	1.82
3207201--3207247	23	2.0	23	95	0	85	19	27	25	27	1.99
3208308--3208515	65	3.2	62	75	12	179	32	23	17	27	1.96
3210085--3210303	91	2.4	92	85	2	287	30	20	11	36	1.89
3210269--3210337	31	2.2	32	84	7	97	27	21	17	33	1.96
3210179--3210401	122	1.8	122	89	3	351	27	21	13	37	1.91
3210179--3210430	122	2.1	122	84	5	339	27	21	13	37	1.91
3210319--3210489	92	1.9	91	88	1	261	27	23	9	39	1.86
3210913--3210952	17	2.4	16	84	8	53	47	2	2	47	1.29
3210923--3211147	123	1.8	123	84	0	306	35	16	11	36	1.85
3211814--3211876	31	2.0	32	87	3	92	42	1	17	38	1.59
3213976--3214095	35	3.3	36	87	6	172	44	18	5	32	1.71
3218534--3218652	37	3.3	37	84	8	165	45	17	5	31	1.70
3218581--3218644	21	3.4	20	66	29	59	46	18	4	29	1.69
3218536--3218645	35	3.1	35	89	3	159	45	18	4	31	1.69
3219261--3219301	21	2.0	21	85	0	55	19	36	34	9	1.85
3225613--3225668	28	2.0	28	85	0	76	44	1	16	37	1.58
3226713--3226744	16	2.0	17	88	11	50	31	9	6	53	1.58
3227052--3227105	20	2.7	20	97	2	99	37	5	3	53	1.42
3231830--3231882	17	3.1	17	83	0	70	39	5	16	37	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3234621--3234668	19	2.5	20	82	3	62	52	6	12	29	1.63
3235337--3235374	20	1.9	20	94	0	67	42	7	10	39	1.69
3235953--3236006	21	2.6	21	87	0	81	22	40	14	22	1.90
3238595--3238623	14	2.1	14	100	0	58	34	13	31	20	1.92
3242759--3242866	26	4.2	25	69	18	62	39	16	12	31	1.85
3242748--3243174	50	8.4	51	78	8	338	43	17	9	29	1.80
3242798--3243190	102	3.9	101	81	5	423	44	17	9	28	1.79
3242873--3243114	25	9.5	26	66	22	84	45	18	8	28	1.78
3245390--3246242	159	5.4	157	82	7	1023	28	18	5	47	1.72
3245390--3246211	315	2.6	316	86	4	1081	28	17	5	47	1.71

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