genome.fa.s8523.2.7.7.80.10.50.1000.12.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: VEPZ01008523.1 Hibiscus syriacus cultivar Beakdansim tig00111392_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4657139

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

This is table  12  of  18  ( 2060 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)
3122796--3122876	6	13.5	6	100	0	162	0	16	50	33	1.45
3122938--3123085	20	7.1	20	83	11	156	18	20	24	35	1.95
3122943--3123066	43	3.0	41	82	13	146	19	21	22	36	1.95
3123076--3123129	20	2.7	20	94	0	90	11	20	18	50	1.77
3123116--3123167	19	2.7	19	90	3	77	15	17	25	42	1.88
3125259--3125375	2	58.5	2	76	13	98	41	4	0	53	1.26
3125509--3125559	20	2.5	20	76	20	52	45	1	11	41	1.52
3127006--3127077	2	36.0	2	100	0	144	50	0	0	50	1.00
3138747--3138794	2	24.0	2	100	0	96	50	0	0	50	1.00
3139153--3139276	60	2.1	60	87	0	176	12	29	5	51	1.63
3141758--3141837	26	3.1	26	98	0	151	33	18	5	42	1.72
3141762--3141831	12	5.5	12	70	12	59	32	21	4	41	1.73
3143319--3143347	11	2.6	11	100	0	58	27	27	27	17	1.97
3152728--3152910	42	4.4	40	77	6	118	30	22	17	29	1.97
3153372--3153516	44	3.3	43	83	9	170	31	16	22	29	1.96
3155859--3155980	31	3.8	31	76	6	111	43	1	4	50	1.33
3156791--3156843	2	26.5	2	100	0	106	50	0	0	49	1.00
3157325--3157415	28	3.2	28	98	0	173	35	20	17	26	1.95
3160955--3160992	17	2.2	17	86	9	51	76	0	23	0	0.79
3160957--3160996	13	3.0	14	85	7	57	75	0	25	0	0.81
3168801--3168834	2	17.0	2	100	0	68	50	0	0	50	1.00
3168935--3169062	31	4.0	31	82	4	139	46	0	3	49	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3171121--3171183	28	2.2	28	91	0	99	34	20	17	26	1.95
3175291--3175966	216	3.2	215	89	5	1005	51	8	11	28	1.68
3176033--3176098	17	3.7	17	75	18	55	42	1	7	48	1.40
3176192--3176309	11	10.8	11	68	15	59	46	2	4	46	1.35
3176314--3176351	14	2.7	14	95	0	67	28	0	26	44	1.54
3176357--3176391	6	5.8	6	100	0	70	34	0	0	65	0.93
3176399--3176470	22	3.4	20	75	14	72	40	8	1	50	1.41
3176412--3176443	11	2.9	11	100	0	64	37	6	0	56	1.25
3176401--3176495	44	2.3	40	85	7	118	41	7	3	48	1.47
3176469--3176661	18	10.8	17	69	19	81	43	9	6	40	1.63
3176434--3176599	91	1.8	90	83	10	221	42	8	6	42	1.59
3176465--3176745	91	3.1	86	77	13	239	43	8	5	41	1.59
3176475--3176674	35	5.6	33	76	16	145	43	9	7	41	1.63
3176479--3176677	109	1.8	106	84	7	267	42	9	7	41	1.63
3176479--3176652	53	3.2	53	80	7	199	43	10	7	39	1.67
3176649--3177019	2	179.0	2	63	21	72	46	7	4	41	1.52
3176614--3176712	41	2.6	39	76	12	107	44	6	3	46	1.43
3176708--3176840	71	1.9	71	82	6	171	48	8	3	40	1.49
3176810--3176995	20	8.9	21	71	20	140	47	7	5	39	1.55
3176709--3176859	71	2.1	70	79	8	155	47	7	3	41	1.49
3176898--3177010	35	3.1	35	82	11	104	47	8	4	38	1.55
3176977--3177010	13	2.5	13	90	4	50	47	8	2	41	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3176945--3177033	35	2.5	35	89	5	126	43	8	4	42	1.56
3176854--3177048	20	9.6	20	66	24	83	45	8	6	40	1.59
3176990--3177048	22	2.7	22	78	17	68	42	8	5	44	1.57
3177058--3177148	21	4.3	20	73	12	74	39	6	6	47	1.56
3177073--3177175	22	4.8	21	77	11	84	38	5	6	48	1.54
3177189--3177291	21	4.6	21	73	16	82	45	5	1	46	1.38
3177158--3177347	31	5.7	31	72	18	123	42	5	2	50	1.37
3177122--3177369	136	1.8	137	81	4	313	43	5	2	48	1.39
3177362--3177457	21	4.7	20	72	24	67	46	0	1	52	1.07
3177362--3177459	6	16.7	6	72	22	59	46	0	1	52	1.07
3177351--3177464	28	4.1	28	78	16	107	48	0	0	50	1.13
3177364--3177443	15	5.4	15	80	8	83	47	0	1	51	1.08
3179824--3179877	23	2.3	23	83	0	72	22	9	25	42	1.83
3180448--3180485	13	2.8	13	82	17	51	60	0	2	36	1.11
3180464--3180510	19	2.5	19	86	10	62	61	0	6	31	1.21
3182792--3182841	26	1.9	26	91	0	82	28	20	26	26	1.99
3185331--3185413	29	2.7	30	81	7	105	46	2	2	48	1.28
3189546--3189608	28	2.2	28	94	5	110	39	19	15	25	1.91
3191475--3191529	27	2.0	27	100	0	110	23	14	21	40	1.90
3191629--3191670	14	3.0	14	100	0	84	42	7	0	50	1.30
3194939--3194979	19	2.1	20	90	4	66	19	26	31	21	1.97
3195810--3195850	18	2.3	18	91	0	64	41	2	41	14	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3196922--3197014	24	3.9	24	88	2	125	23	10	17	48	1.78
3196922--3197014	48	1.9	48	89	4	143	23	10	17	48	1.78
3196913--3197019	12	8.9	12	67	14	51	21	12	16	49	1.78
3196913--3197021	24	4.5	24	82	4	114	22	11	16	49	1.78
3200094--3200152	24	2.5	24	75	5	66	28	10	15	45	1.78
3206508--3206603	31	3.1	31	82	7	108	43	2	4	50	1.33
3206568--3206637	35	2.0	35	91	0	113	45	0	2	51	1.16
3206587--3206638	12	4.4	12	80	9	63	44	0	0	55	0.99
3209266--3209294	3	9.7	3	100	0	58	65	0	0	34	0.93
3211153--3211213	28	2.2	28	93	0	104	36	19	18	26	1.94
3213221--3213247	14	1.9	14	100	0	54	48	7	0	44	1.31
3213773--3213852	41	2.0	41	82	5	99	28	17	25	28	1.97
3218635--3218732	31	3.2	31	79	0	97	44	2	5	47	1.36
3219532--3219594	28	2.2	28	94	0	108	36	19	15	28	1.92
3219909--3220113	74	2.8	75	89	3	292	28	1	13	56	1.47
3220036--3220062	12	2.2	12	100	0	54	40	0	7	51	1.30
3220691--3220723	9	3.8	9	88	8	50	21	0	0	78	0.75
3220690--3220723	17	2.0	17	88	0	50	23	0	0	76	0.79
3220690--3220725	13	2.8	12	91	8	54	22	0	0	77	0.76
3220764--3220832	26	2.6	26	84	11	79	24	5	0	69	1.10
3220933--3220968	17	2.1	17	89	0	54	19	30	5	44	1.73
3226523--3226611	29	3.3	28	68	15	78	40	14	22	22	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3228325--3228438	56	1.9	59	82	10	144	25	1	13	59	1.43
3228417--3228470	22	2.3	24	81	6	67	37	0	11	51	1.37
3228457--3228501	15	2.9	16	78	15	51	35	0	8	55	1.31
3228342--3228527	78	2.5	75	83	11	229	30	0	13	55	1.43
3229177--3229249	19	3.7	20	78	10	78	23	6	0	69	1.12
3231562--3231604	20	2.2	20	91	0	68	53	18	13	13	1.73
3231569--3231617	20	2.5	20	93	0	80	48	22	18	10	1.77
3231968--3232022	22	2.5	22	87	0	83	20	20	41	18	1.90
3234760--3235208	221	2.0	225	90	4	703	32	12	16	38	1.86
3235610--3235659	25	2.0	25	88	7	75	20	20	28	32	1.97
3238250--3238460	42	5.0	42	73	0	125	31	19	17	30	1.95
3238855--3238988	43	3.1	43	82	6	121	37	17	19	26	1.93
3238887--3239029	43	3.3	43	81	7	173	30	15	23	30	1.95
3239404--3239445	18	2.3	18	87	0	57	61	4	14	19	1.49
3240255--3240544	43	6.8	43	77	3	219	34	17	21	26	1.95
3240255--3240424	85	2.0	86	82	3	209	35	18	21	24	1.96
3247136--3247232	31	3.1	31	78	1	104	45	2	5	47	1.36
3247198--3247251	24	2.2	24	96	0	99	44	0	5	50	1.25
3248875--3248899	2	12.5	2	100	0	50	52	0	0	48	1.00
3249379--3249441	28	2.2	28	97	0	117	36	20	17	25	1.94
3261106--3261231	42	3.0	42	76	2	130	25	21	20	32	1.98
3261756--3261882	42	2.9	43	80	8	150	34	14	19	31	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3261777--3261898	42	2.8	43	79	10	133	32	13	20	33	1.91
3262271--3262312	18	2.3	18	87	0	57	61	4	14	19	1.49
3263154--3263422	42	6.4	42	81	6	294	32	18	22	26	1.97
3263160--3263410	83	3.0	84	82	4	310	33	19	21	25	1.97
3263923--3264080	43	3.7	43	81	3	167	38	15	16	29	1.89
3264462--3264503	18	2.3	18	87	0	57	61	4	14	19	1.49
3266250--3266300	24	2.1	24	92	0	84	43	9	13	33	1.77
3266302--3266352	23	2.3	23	96	3	95	39	17	19	23	1.92
3270737--3270894	60	2.7	61	82	9	202	33	25	5	36	1.78
3271012--3271162	60	2.5	61	80	7	148	38	4	25	31	1.76

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