genome.fa.s8209.2.7.7.80.10.50.1000.13.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: VEPZ01008209.1 Hibiscus syriacus cultivar Beakdansim tig00110831_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6561538

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   

This is table  13  of  30  ( 3569 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)
2997335--2997572	110	2.2	110	84	4	306	35	23	17	24	1.95
2997772--2997954	83	2.2	84	83	7	221	33	21	20	24	1.97
2999219--2999276	30	1.9	30	83	13	75	22	6	1	68	1.22
3001319--3003075	875	2.0	876	98	0	3374	30	15	23	29	1.96
3007041--3007413	54	6.9	54	84	0	458	34	17	17	29	1.94
3008008--3008043	19	1.9	18	88	5	54	83	2	11	2	0.86
3008579--3008617	19	2.0	21	90	10	64	71	0	0	28	0.86
3008929--3008966	16	2.4	17	82	13	53	36	2	5	55	1.37
3011357--3011939	99	5.9	99	78	6	470	30	14	19	36	1.91
3013145--3013182	20	1.9	20	88	0	58	23	7	28	39	1.83
3013146--3013191	20	2.3	20	84	0	56	28	8	23	39	1.84
3019802--3019852	20	2.5	20	87	6	68	31	17	23	27	1.97
3022887--3022951	28	2.3	28	84	7	78	72	6	6	15	1.25
3023919--3023954	4	8.8	4	87	6	54	77	0	19	2	0.88
3027014--3027039	8	3.2	8	100	0	52	38	15	23	23	1.92
3028278--3028899	99	6.3	99	85	2	684	28	15	22	34	1.94
3028308--3028980	297	2.3	297	82	3	809	28	15	22	33	1.94
3028309--3028978	99	6.8	97	85	3	623	28	14	22	33	1.94
3028319--3028978	198	3.3	195	79	8	692	28	14	22	33	1.94
3029984--3030035	24	2.1	25	82	10	63	36	9	21	32	1.86
3040170--3040210	20	2.0	20	85	4	55	31	4	9	53	1.55
3046086--3046147	23	2.7	23	84	0	88	24	9	27	38	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3046145--3046191	24	2.0	24	91	0	76	21	25	23	29	1.99
3050806--3051191	182	2.1	182	90	4	625	41	13	17	27	1.87
3053251--3053283	15	2.2	15	100	0	66	18	6	63	12	1.48
3053431--3053494	33	1.9	33	93	0	110	29	0	46	23	1.52
3054684--3054848	4	41.2	4	98	0	321	25	0	24	49	1.50
3055427--3055471	19	2.4	19	96	0	81	35	0	6	57	1.25
3055738--3056679	201	4.7	201	90	2	1326	37	15	16	31	1.89
3059666--3060231	201	2.8	198	89	3	821	37	13	16	31	1.88
3062753--3063468	200	3.6	195	82	8	741	38	14	15	30	1.88
3063486--3063648	87	1.9	87	94	0	290	33	14	11	40	1.82
3063570--3063614	23	2.0	23	90	0	72	37	17	8	35	1.81
3064877--3064943	21	3.2	21	66	16	57	46	7	14	31	1.73
3067246--3067273	2	14.0	2	100	0	56	50	0	0	50	1.00
3068156--3068193	14	2.7	14	92	8	60	23	0	26	50	1.50
3070794--3070819	12	2.2	12	100	0	52	23	7	7	61	1.49
3071785--3071827	21	2.0	21	90	0	68	18	51	6	23	1.70
3073322--3073363	21	2.0	21	86	9	59	50	2	0	47	1.14
3075450--3075476	11	2.5	11	100	0	54	18	7	0	74	1.05
3079273--3079325	21	2.5	21	96	0	97	24	13	30	32	1.93
3084084--3084184	42	2.4	41	80	3	121	31	22	21	23	1.98
3084299--3084399	42	2.4	41	75	3	103	30	23	22	22	1.99
3083915--3085039	215	5.2	215	95	0	1970	31	20	16	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3083915--3085039	429	2.6	428	94	1	1993	31	20	16	32	1.94
3084943--3085071	42	3.1	42	88	1	179	31	20	22	25	1.98
3085075--3085250	36	4.9	35	77	12	119	21	16	22	40	1.91
3085094--3085260	36	4.6	36	84	7	162	20	16	23	38	1.92
3085126--3085260	36	3.7	35	87	7	173	21	14	23	40	1.91
3086370--3086620	125	2.0	125	81	7	296	23	27	16	32	1.96
3091989--3092045	21	2.7	21	89	5	80	15	19	19	45	1.85
3094252--3094311	27	2.2	27	96	0	111	61	15	0	23	1.33
3097917--3097973	27	2.1	28	96	3	107	52	5	0	42	1.24
3097931--3097972	20	2.1	20	100	0	84	52	4	0	42	1.22
3097924--3097973	7	7.1	7	84	15	68	54	4	0	42	1.19
3098515--3098597	33	2.5	32	92	3	121	18	40	12	28	1.86
3098957--3098995	18	2.3	18	86	8	55	35	2	10	51	1.50
3098965--3099041	36	2.2	35	82	11	97	27	2	14	55	1.52
3099019--3099104	22	4.0	22	92	1	138	18	3	22	55	1.57
3100155--3100312	57	2.8	57	91	0	262	28	5	19	46	1.71
3100144--3100312	30	5.8	30	79	13	183	30	4	19	45	1.71
3101634--3101692	31	1.9	31	100	0	118	42	6	6	44	1.57
3102096--3102164	21	2.9	25	70	24	67	46	1	1	50	1.19
3103100--3103140	18	2.3	17	84	12	55	68	9	4	17	1.35
3107932--3108031	3	33.3	3	95	0	164	65	0	3	32	1.08
3124608--3124658	22	2.3	22	93	0	84	45	15	11	27	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3126328--3126385	17	3.4	17	76	9	64	44	0	8	46	1.34
3136578--3136612	9	3.9	9	88	11	54	77	8	2	11	1.10
3136579--3136612	17	1.9	18	94	5	61	76	8	2	11	1.12
3145946--3146001	17	3.3	17	100	0	112	33	12	5	48	1.64
3148399--3148470	22	3.3	22	64	24	62	40	16	2	40	1.63
3148393--3148478	43	2.0	43	100	0	172	41	16	2	39	1.61
3150519--3150567	18	2.7	18	90	6	73	22	8	40	28	1.82
3150583--3150640	12	4.8	11	74	17	53	31	29	12	27	1.92
3150589--3150640	20	2.8	18	81	18	63	30	28	13	26	1.94
3153279--3153334	21	2.7	20	83	10	60	53	5	0	41	1.24
3155541--3155590	21	2.4	21	96	3	93	50	14	10	26	1.73
3157349--3157377	15	2.0	15	93	6	51	17	27	0	55	1.42
3159708--3159983	138	2.0	138	99	0	543	31	7	15	44	1.76
3160333--3160383	14	3.6	14	76	10	50	43	1	0	54	1.11
3164149--3164212	32	2.0	32	96	0	119	31	20	18	29	1.96
3166470--3166547	24	3.3	24	85	1	77	35	17	26	19	1.94
3166594--3166620	14	1.9	14	100	0	54	51	7	11	29	1.64
3166593--3166627	14	2.5	13	86	13	52	48	8	8	34	1.64
3176166--3176873	356	2.0	352	97	2	1348	38	11	18	31	1.86
3181267--3181306	2	20.0	2	100	0	80	0	50	0	50	1.00
3183327--3183367	21	2.0	21	85	0	55	39	4	9	46	1.58
3184342--3184399	30	2.0	29	83	10	73	53	0	1	44	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3193633--3193701	24	3.0	22	67	10	57	28	10	5	55	1.56
3200255--3200348	47	2.0	47	85	4	127	25	4	21	48	1.68
3207472--3207510	11	3.5	11	89	6	60	87	0	12	0	0.55
3210828--3210913	15	5.7	15	76	17	65	76	0	16	6	0.99
3210834--3210929	7	12.7	7	75	15	77	78	0	16	5	0.93
3210834--3210929	23	4.2	21	73	23	72	78	0	16	5	0.93
3210849--3210929	15	5.2	16	76	10	80	77	0	17	4	0.93
3210879--3210940	17	3.9	15	80	14	63	77	0	19	3	0.90
3210885--3210950	17	3.9	17	77	11	57	72	0	21	6	1.05
3212266--3212326	20	2.8	22	69	20	56	34	16	21	27	1.95
3213892--3213964	23	3.3	22	75	9	60	26	2	2	68	1.16
3214706--3214737	11	2.9	11	95	0	55	28	28	0	43	1.55
3218428--3218872	225	2.0	225	96	0	827	29	25	11	33	1.91
3222957--3223011	24	2.3	25	81	6	60	34	16	20	29	1.94
3232693--3232728	10	3.7	10	92	3	56	33	41	13	11	1.80
3237271--3237306	10	3.7	10	92	3	56	33	41	13	11	1.80
3239653--3239754	12	8.2	11	77	12	69	77	0	5	16	0.96
3239683--3239742	6	10.2	6	90	1	95	80	0	3	16	0.85
3239654--3239797	12	11.5	12	75	21	68	73	0	4	21	1.01
3239848--3239899	20	2.6	20	80	17	63	76	0	11	11	1.01
3239874--3239915	7	5.6	7	84	15	57	85	0	11	2	0.68
3239847--3239915	29	2.3	30	78	14	72	79	0	11	8	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3241069--3241095	13	2.1	13	100	0	54	70	0	0	29	0.88
3242794--3242838	13	3.6	12	82	11	54	4	20	0	75	0.97
3242790--3242838	19	2.5	20	87	6	66	6	20	0	73	1.04
3242794--3242848	6	8.7	6	76	11	56	5	18	1	74	1.10
3242796--3242846	26	2.0	26	84	7	68	5	17	1	74	1.11
3242897--3242959	6	10.7	6	86	10	94	1	14	0	84	0.71
3242904--3242959	24	2.4	24	96	3	105	1	12	0	85	0.67
3250300--3250346	24	2.0	24	83	8	60	55	6	17	21	1.64
3253592--3253664	10	7.8	10	71	20	59	72	0	13	13	1.12
3253539--3253664	18	6.5	19	72	19	73	72	0	13	13	1.17

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