genome.fa.s9585.2.7.7.80.10.50.1000.15.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: VEPZ01009585.1 Hibiscus syriacus cultivar Beakdansim tig00116962_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8285662

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   

This is table  15  of  35  ( 4106 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)
3078604--3078770	20	8.4	20	80	9	189	40	25	15	18	1.90
3078583--3078770	40	4.7	40	90	5	267	39	25	15	19	1.91
3078737--3078828	19	4.7	19	81	5	78	34	21	13	30	1.91
3078753--3078828	19	3.9	19	83	6	91	35	21	11	31	1.89
3078583--3078828	40	6.2	39	84	7	241	38	23	15	22	1.92
3078802--3078848	18	2.5	19	82	6	60	31	21	12	34	1.91
3078985--3079021	16	2.4	16	86	8	51	29	5	0	64	1.15
3079614--3079647	12	2.8	12	90	0	50	55	29	0	14	1.40
3079767--3079826	24	2.5	24	78	10	77	26	18	16	38	1.92
3080001--3080037	3	12.3	3	94	0	65	67	0	32	0	0.91
3082117--3082159	20	2.1	21	91	4	70	53	18	11	16	1.72
3082181--3082219	14	2.9	14	82	17	55	41	30	20	7	1.80
3082215--3082296	20	4.4	20	66	17	68	20	20	20	37	1.94
3082215--3082350	54	2.5	54	89	0	200	20	21	18	39	1.92
3082313--3082379	20	3.1	20	75	19	71	19	23	13	43	1.86
3082476--3082525	25	2.0	25	96	0	91	26	8	22	44	1.80
3082916--3082952	18	2.1	18	89	0	56	32	5	10	51	1.60
3082908--3082960	24	2.2	24	86	0	70	35	3	13	47	1.61
3084275--3084326	20	2.5	21	81	12	63	21	21	15	42	1.89
3086044--3086203	65	2.5	65	87	5	218	26	18	25	30	1.98
3088348--3088386	13	3.1	13	88	3	53	48	2	7	41	1.45
3094748--3094796	19	2.7	17	84	9	53	26	20	28	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3094768--3094927	65	2.5	65	85	5	200	26	18	24	30	1.98
3094940--3094995	20	2.8	20	97	0	103	17	16	35	30	1.92
3094768--3094976	65	3.2	63	79	8	199	26	17	24	31	1.97
3095777--3095894	21	5.6	21	76	0	101	21	17	36	24	1.95
3095777--3095894	42	2.8	43	81	3	141	21	17	36	24	1.95
3097219--3097258	18	2.3	17	86	4	53	27	5	0	67	1.11
3100312--3100367	20	2.7	21	86	2	69	30	23	21	25	1.99
3100367--3100423	19	2.7	22	76	15	66	35	5	24	35	1.78
3100436--3100491	20	2.8	21	69	15	55	30	17	25	26	1.97
3100476--3100542	20	3.3	20	75	8	64	31	22	22	23	1.98
3100486--3100549	20	3.2	20	70	12	51	31	23	25	20	1.98
3100564--3100609	19	2.4	19	85	3	56	21	17	30	30	1.96
3100575--3100611	19	1.9	19	94	0	65	21	16	29	32	1.95
3102488--3102662	6	29.2	6	100	0	350	49	16	0	33	1.46
3104186--3104220	12	2.9	12	100	0	70	8	8	51	31	1.63
3104186--3104240	24	2.3	24	83	0	65	12	14	47	25	1.80
3104238--3104329	2	49.0	2	69	12	52	47	0	0	52	1.00
3104350--3104398	13	3.8	13	94	2	82	12	16	55	16	1.70
3104350--3104398	25	1.9	25	91	4	80	12	16	55	16	1.70
3108505--3108580	35	2.2	35	90	0	116	39	22	1	36	1.63
3108977--3109224	130	1.9	130	90	0	397	36	14	12	35	1.85
3108991--3109255	130	2.0	129	80	4	291	39	13	13	33	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3109555--3109617	28	2.3	27	78	8	63	46	1	3	49	1.27
3109689--3109722	16	2.0	18	88	11	54	64	5	2	26	1.30
3111242--3111948	354	2.0	355	96	0	1308	33	21	18	26	1.96
3113301--3113504	9	21.9	9	66	20	50	21	5	0	72	1.12
3113279--3113350	34	2.1	35	87	7	103	27	2	0	69	1.02
3113310--3113378	24	3.0	22	76	19	61	23	1	2	72	1.06
3113299--3113411	48	2.4	46	80	10	131	20	3	1	74	1.06
3113299--3113415	47	2.5	46	78	12	130	20	3	1	74	1.05
3113292--3113417	51	2.5	51	79	8	141	19	3	1	75	1.02
3113454--3113505	26	1.9	28	88	7	81	23	3	0	73	1.00
3113455--3113517	30	2.0	32	87	6	94	23	4	0	71	1.05
3114334--3114385	27	2.0	26	92	3	86	21	19	21	38	1.94
3116666--3116698	15	2.2	15	94	0	57	54	0	0	45	0.99
3118884--3118956	35	2.1	35	94	0	128	30	13	24	31	1.94
3122342--3122379	19	2.0	19	100	0	76	36	15	26	21	1.93
3124557--3124587	3	10.3	3	92	0	53	64	0	35	0	0.94
3134662--3134710	23	2.2	23	85	3	64	22	34	20	22	1.97
3142211--3142247	14	2.7	14	88	12	51	64	0	2	32	1.07
3154037--3154114	41	1.9	41	86	0	111	24	12	20	42	1.87
3154261--3154297	19	1.9	19	100	0	74	37	5	16	40	1.71
3161070--3161154	29	3.0	29	91	5	138	28	12	10	48	1.75
3161073--3161163	27	3.3	27	93	3	146	26	10	10	51	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3162299--3162440	70	2.0	70	100	0	284	26	12	9	50	1.71
3163290--3163349	20	2.9	21	90	7	95	30	25	26	18	1.98
3163383--3163427	22	2.0	22	91	4	72	28	33	26	11	1.91
3164724--3164936	103	2.1	103	95	0	381	25	13	24	36	1.92
3166432--3166468	17	2.2	17	100	0	74	27	13	24	35	1.93
3166596--3166950	177	2.0	177	98	0	692	35	6	24	34	1.80
3168725--3168784	20	2.9	21	90	7	95	30	25	26	18	1.98
3170037--3170249	103	2.1	103	94	1	374	26	14	23	36	1.93
3170264--3170328	23	2.8	23	79	9	87	18	27	27	26	1.98
3188252--3188362	55	2.0	55	100	0	222	19	18	18	43	1.89
3190731--3190771	21	2.0	20	90	9	64	63	0	0	36	0.95
3196639--3196754	61	1.9	61	86	8	166	27	26	6	39	1.79
3196916--3197065	60	2.5	60	78	6	142	42	7	19	31	1.79
3197991--3198148	21	7.8	20	70	7	77	37	24	17	19	1.93
3198116--3198464	20	17.5	20	85	4	427	34	25	18	20	1.96
3199141--3199187	24	2.0	24	87	8	69	25	14	21	38	1.92
3199362--3199386	12	2.1	12	100	0	50	72	0	28	0	0.86
3201670--3201943	19	15.4	19	80	15	336	47	17	20	14	1.83
3201670--3201965	33	8.5	35	83	12	264	46	17	20	14	1.83
3201698--3201965	109	2.5	105	89	6	441	46	16	21	14	1.83
3201698--3201965	52	5.0	52	92	4	437	46	16	21	14	1.83
3201972--3202054	20	4.6	19	81	15	113	14	24	18	43	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3202161--3202197	14	2.6	14	91	0	65	45	21	0	32	1.52
3204147--3204203	14	3.7	14	77	20	60	45	22	21	10	1.82
3204128--3204220	33	2.8	33	95	0	168	47	21	20	10	1.80
3204091--3204225	19	7.6	19	76	16	128	45	23	19	11	1.82
3204221--3204349	19	7.3	19	73	17	116	9	17	27	45	1.78
3204221--3204312	33	2.8	34	91	3	143	8	18	27	45	1.78
3204393--3204771	92	4.1	93	98	0	735	46	18	12	22	1.83
3204393--3204771	185	2.0	185	98	1	733	46	18	12	22	1.83
3206478--3206567	14	5.7	14	74	23	81	42	23	25	8	1.83
3206470--3206584	33	3.5	33	95	0	212	45	20	24	9	1.81
3206477--3206589	19	6.8	18	72	23	88	43	22	24	9	1.83
3206601--3206655	14	3.6	14	73	21	56	9	25	23	41	1.83
3206585--3206655	33	2.2	33	94	0	124	8	22	25	43	1.81
3206596--3206677	33	2.5	33	89	2	119	9	25	21	42	1.84
3206608--3206696	20	4.8	20	72	19	75	12	24	19	43	1.85
3206776--3206846	33	2.2	33	92	0	115	47	18	22	11	1.80
3207027--3207081	22	2.5	22	81	0	74	20	16	40	23	1.91
3207227--3207419	20	9.6	20	82	5	219	19	19	25	35	1.95
3207227--3207419	60	3.2	60	83	0	251	19	19	25	35	1.95
3208264--3208937	334	2.0	339	88	3	1022	43	8	4	43	1.56
3212263--3212314	24	2.2	24	82	0	59	9	13	26	50	1.72
3212274--3212320	24	2.0	24	100	0	94	8	8	25	57	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3212279--3212334	24	2.3	24	87	0	76	12	8	19	58	1.60
3213410--3213476	16	4.3	16	88	3	93	10	8	19	61	1.54
3221997--3222039	21	2.0	21	81	0	50	30	30	25	13	1.94
3222411--3222460	19	2.7	18	84	3	55	30	2	16	52	1.55
3223627--3223694	23	3.0	23	86	0	100	17	25	26	30	1.97
3232059--3232247	74	2.5	74	82	4	211	29	7	13	49	1.71
3232250--3232291	19	2.3	19	95	4	77	35	2	0	61	1.09
3232360--3232404	12	3.8	12	100	0	90	8	40	17	33	1.81
3232339--3232380	18	2.3	19	83	4	50	4	42	16	35	1.69
3244347--3244405	21	2.8	21	81	0	73	25	30	22	22	1.99

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