genome.fa.s9610.2.7.7.80.10.50.1000.14.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: VEPZ01009610.1 Hibiscus syriacus cultivar Beakdansim tig00116996_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3811333

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

This is table  14  of  18  ( 2160 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)
2773520--2773558	14	2.5	15	88	12	53	25	0	0	74	0.82
2774332--2774374	2	21.5	2	100	0	86	48	0	0	51	1.00
2774970--2774994	7	3.6	7	100	0	50	44	0	0	56	0.99
2781030--2781078	23	2.1	23	88	7	73	57	12	2	28	1.46
2784210--2784235	13	2.0	13	100	0	52	53	15	7	23	1.67
2784765--2784797	2	16.5	2	100	0	66	48	0	0	51	1.00
2800952--2800991	19	2.1	19	90	4	62	40	0	0	60	0.97
2802252--2802298	19	2.5	20	86	13	64	59	0	0	40	0.97
2803136--2803476	168	2.0	170	98	1	659	22	16	18	42	1.89
2807919--2807944	12	2.2	12	100	0	52	34	7	34	23	1.83
2812017--2812068	21	2.6	20	88	11	72	67	0	1	30	1.02
2813384--2813445	3	19.7	3	80	12	63	61	0	0	38	0.96
2813376--2813440	15	4.3	15	75	21	73	58	0	0	41	0.98
2813378--2813448	21	3.3	20	78	17	81	57	0	0	42	0.98
2813603--2814365	76	10.0	76	95	0	1366	33	20	21	24	1.97
2814368--2814691	165	2.0	165	91	2	526	38	12	13	35	1.83
2815200--2815260	22	2.8	22	92	0	104	39	14	9	36	1.80
2815610--2815771	54	3.0	54	92	0	252	24	20	15	39	1.91
2822049--2822088	21	1.9	21	84	0	53	60	7	15	17	1.57
2822153--2822235	43	1.9	44	90	2	132	39	21	9	28	1.85
2824477--2824528	21	2.5	20	79	11	61	67	0	5	26	1.13
2825426--2825477	21	2.6	20	88	11	72	67	0	1	30	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2826774--2826835	3	19.7	3	80	12	63	61	0	0	38	0.96
2826766--2826830	15	4.3	15	75	21	73	58	0	0	41	0.98
2826768--2826838	21	3.3	20	78	17	81	57	0	0	42	0.98
2826960--2827115	82	1.9	82	97	0	294	34	25	4	35	1.76
2837617--2837691	24	3.1	24	86	3	98	68	5	22	4	1.28
2837617--2837691	12	6.2	12	76	6	80	68	5	22	4	1.28
2863885--2864055	60	2.9	59	78	6	179	34	22	4	39	1.73
2863885--2864000	58	2.0	59	84	3	155	36	18	4	40	1.71
2864174--2864327	58	2.6	58	82	6	157	40	2	20	36	1.66
2864246--2864332	29	2.9	29	73	15	79	47	1	16	35	1.54
2865563--2865616	28	2.0	27	92	3	90	53	16	1	27	1.53
2866898--2867003	54	2.0	54	96	0	194	33	18	30	16	1.94
2873527--2873564	19	2.0	20	89	5	60	50	5	0	44	1.24
2873950--2874009	23	2.6	24	79	12	72	53	0	3	43	1.17
2873956--2873995	20	2.0	20	85	0	53	55	0	2	42	1.13
2877398--2877443	23	2.0	23	83	8	58	56	4	4	34	1.39
2879826--2879863	15	2.5	15	95	0	67	26	2	0	71	1.00
2883385--2883422	15	2.5	15	91	0	58	28	39	10	21	1.86
2884266--2884310	12	3.3	15	76	20	53	60	31	2	6	1.35
2888022--2888110	30	3.0	30	85	1	108	33	28	20	17	1.95
2888066--2888151	31	2.8	31	85	1	102	33	23	17	25	1.96
2888066--2888172	31	3.5	30	78	7	99	34	21	17	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2888818--2888968	62	2.4	61	76	14	146	28	16	21	33	1.95
2892193--2892287	31	3.1	31	80	3	111	34	21	17	26	1.95
2892418--2892453	17	2.0	19	89	10	58	38	11	5	44	1.63
2892803--2892918	60	1.9	63	84	8	159	28	17	21	32	1.96
2892778--2892924	60	2.4	58	77	18	145	28	17	21	31	1.96
2894641--2894773	30	4.4	30	94	0	221	31	24	18	25	1.98
2894756--2894851	31	3.1	30	74	12	88	32	20	19	27	1.97
2895930--2896051	64	1.9	63	86	1	172	24	22	18	33	1.97
2901275--2901352	41	1.9	41	81	5	95	25	15	17	41	1.89
2901421--2901584	82	2.0	83	83	3	206	28	21	15	34	1.95
2901448--2901606	82	1.9	82	81	5	187	30	20	14	34	1.92
2902801--2902899	37	2.7	37	95	0	171	38	25	16	20	1.92
2903354--2903392	16	2.5	15	81	18	53	20	7	15	56	1.63
2903798--2903864	31	2.2	31	100	0	134	10	11	13	64	1.51
2913003--2913039	18	2.1	19	90	10	60	70	0	2	27	1.01
2913165--2913214	26	1.9	27	88	8	77	60	2	2	36	1.20
2913231--2913255	11	2.3	11	100	0	50	72	0	0	28	0.86
2914698--2915224	39	13.6	39	88	0	736	22	25	12	40	1.88
2915087--2915151	20	3.3	20	68	20	55	24	24	10	40	1.87
2915126--2915190	20	3.3	20	62	12	53	20	30	10	38	1.86
2915568--2915596	7	4.3	7	95	4	51	0	31	0	68	0.89
2916061--2916141	22	3.7	22	85	1	110	30	22	28	18	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2917360--2917549	99	1.9	99	96	0	353	37	6	21	34	1.79
2917714--2917928	104	2.1	104	80	3	236	24	15	21	39	1.92
2921484--2921559	21	3.6	21	89	1	107	31	23	23	21	1.98
2921503--2921565	22	2.9	22	83	6	67	31	26	23	17	1.97
2922780--2922993	106	2.0	106	94	0	374	38	7	21	32	1.81
2923372--2923418	24	2.0	24	87	4	69	27	23	21	27	1.99
2923734--2923780	21	2.2	23	78	17	57	51	2	17	29	1.57
2924389--2924602	106	2.0	106	92	0	356	37	6	21	34	1.79
2924440--2924603	53	3.1	52	65	16	129	37	7	20	34	1.82
2924743--2924952	105	2.0	105	82	0	258	23	15	21	39	1.92
2925120--2925160	18	2.3	18	88	12	66	36	0	24	39	1.56
2926891--2927052	54	3.0	54	88	1	236	25	23	14	36	1.93
2936588--2936629	21	2.0	21	95	0	75	23	26	23	26	2.00
2937322--2937446	31	4.0	31	88	2	162	41	23	15	20	1.89
2940065--2940110	13	3.5	14	77	14	53	65	10	10	13	1.48
2941743--2941796	28	1.9	28	84	0	72	64	5	7	22	1.40
2946903--2946959	28	2.0	28	86	0	78	28	17	19	35	1.94
2951794--2951832	14	2.8	14	84	7	53	53	0	0	46	1.00
2957350--2957422	23	3.2	23	88	0	110	36	21	6	34	1.81
2975203--2975263	23	2.7	23	87	5	79	39	24	16	19	1.92
2976516--2976542	11	2.5	11	100	0	54	55	14	0	29	1.40
2982118--2982186	23	3.0	23	80	0	84	30	24	23	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2982830--2982991	63	2.5	65	82	6	172	27	19	19	34	1.95
2992311--2992356	21	2.1	21	84	15	58	56	6	0	36	1.25
2994997--2995075	22	3.6	22	98	0	149	31	18	12	36	1.89
2996791--2996841	20	2.5	21	90	3	70	37	23	19	19	1.94
2996797--2996841	20	2.2	20	96	0	81	37	26	22	13	1.91
2996834--2996880	18	2.5	19	89	3	69	29	19	12	38	1.89
2996974--2997024	22	2.3	22	79	0	57	21	39	7	31	1.82
3002065--3002160	21	4.6	21	74	8	70	22	17	33	26	1.96
3004632--3004682	22	2.3	22	89	0	75	27	13	29	29	1.94
3004626--3004698	22	3.3	22	82	0	74	28	12	34	24	1.92
3004826--3004869	20	2.2	20	91	0	70	20	15	20	43	1.88
3007230--3007290	2	31.0	2	96	3	115	49	0	0	50	1.00
3009426--3009519	47	2.0	47	97	0	179	15	12	15	55	1.70
3009733--3009775	16	2.8	16	89	6	63	48	11	20	18	1.79
3009734--3009778	14	3.0	15	90	6	65	48	13	22	15	1.79
3012003--3012103	51	2.0	51	96	0	184	34	11	21	31	1.90
3018120--3018260	60	2.3	60	80	2	158	32	5	29	32	1.81
3032670--3032720	20	2.5	20	87	0	66	35	21	15	27	1.94
3034330--3034354	2	12.5	2	100	0	50	48	0	0	52	1.00
3035614--3035643	2	15.5	2	93	6	53	50	0	0	50	1.00
3038636--3038685	24	2.1	24	100	0	100	52	16	8	24	1.70
3040271--3040870	182	3.3	180	84	4	729	43	12	15	28	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3041202--3041246	23	2.0	23	95	0	81	37	20	8	33	1.83
3045681--3045710	13	2.2	14	94	5	53	40	0	13	46	1.43
3047992--3048054	20	2.9	21	79	9	65	15	25	34	23	1.95
3048846--3049211	181	2.0	181	97	0	696	36	19	13	30	1.90
3053587--3053635	20	2.5	20	93	0	80	20	24	40	14	1.89
3055208--3055268	27	2.3	27	97	0	113	31	22	34	11	1.90
3062233--3062286	21	2.6	22	85	8	69	48	0	1	50	1.11
3064183--3064216	16	2.2	16	89	5	52	58	5	5	29	1.45
3073431--3073482	21	2.4	22	83	6	61	23	19	13	44	1.86
3073439--3073492	21	2.6	20	77	8	63	24	20	18	37	1.94

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