genome.fa.s7800.2.7.7.80.10.50.1000.15.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: VEPZ01007800.1 Hibiscus syriacus cultivar Beakdansim tig00110114_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4652821

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  15  of  23  ( 2671 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)
2911186--2911242	29	1.9	29	85	3	78	50	3	1	43	1.29
2911079--2911269	35	5.7	33	74	14	151	47	7	2	42	1.43
2911898--2913025	84	13.6	84	79	6	1129	25	19	24	30	1.98
2911945--2913025	249	4.3	249	90	0	1698	25	19	24	30	1.98
2911909--2913025	165	6.8	165	79	5	1100	25	19	24	30	1.98
2917536--2917581	14	3.5	14	74	17	53	69	0	6	23	1.11
2918014--2918057	16	2.8	16	92	0	70	34	18	18	29	1.94
2918690--2918739	23	2.2	23	85	7	66	72	0	6	22	1.07
2918734--2918766	10	3.2	11	91	8	52	51	0	0	48	1.00
2918749--2918896	35	4.2	35	75	13	133	45	5	3	45	1.43
2918775--2918913	35	4.0	35	72	17	105	45	6	4	43	1.49
2918887--2918939	27	1.9	27	84	3	70	52	3	1	41	1.30
2920222--2920418	56	3.5	56	89	0	295	27	19	13	39	1.90
2924415--2924544	32	4.1	32	84	0	152	17	30	25	26	1.97
2925739--2925778	18	2.3	17	95	4	71	30	32	22	15	1.94
2925645--2925964	121	2.8	111	85	9	487	34	25	15	25	1.94
2925786--2925981	62	3.2	63	66	23	164	37	23	14	25	1.92
2925860--2925895	18	2.0	18	100	0	72	33	33	22	11	1.89
2925732--2925998	121	2.2	121	97	0	498	35	25	15	23	1.94
2927268--2927311	21	2.1	21	86	0	61	15	27	27	29	1.96
2930021--2930074	23	2.3	23	96	0	99	37	12	11	38	1.79
2937307--2937338	3	10.7	3	100	0	64	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2937632--2937689	31	1.9	30	82	6	73	58	1	3	36	1.25
2943628--2943652	10	2.5	10	100	0	50	72	0	20	8	1.10
2943987--2944125	74	1.9	72	85	8	192	24	14	15	45	1.84
2943987--2944141	74	2.1	73	82	10	185	23	14	16	45	1.84
2947031--2947078	23	2.1	23	84	0	60	37	6	16	39	1.74
2947518--2947893	182	2.1	182	87	4	535	30	14	10	44	1.79
2947881--2948389	110	4.6	112	88	2	731	28	13	10	47	1.76
2947881--2948389	222	2.3	223	89	2	765	28	13	10	47	1.76
2960252--2960291	15	2.7	15	80	0	53	45	0	5	50	1.23
2960687--2960740	22	2.5	22	74	14	58	24	7	0	68	1.15
2960717--2960763	17	3.0	16	77	22	55	27	4	0	68	1.08
2960718--2960759	9	4.9	9	81	18	54	28	2	0	69	1.01
2965348--2965382	12	3.2	11	92	8	54	82	0	17	0	0.66
2965352--2965387	9	4.1	9	92	7	56	83	0	16	0	0.65
2965355--2965387	17	1.9	17	93	0	57	84	0	15	0	0.61
2967571--2968044	81	5.8	82	96	3	843	28	13	21	36	1.92
2969185--2969353	74	2.3	75	85	3	216	34	15	20	29	1.94
2970676--2970752	22	3.5	22	96	0	145	33	11	14	40	1.82
2971408--2972330	75	12.4	76	93	5	1597	21	21	21	36	1.96
2974798--2974883	2	44.5	2	93	6	151	48	0	0	51	1.00
2977542--2977586	18	2.5	18	82	7	56	24	22	13	40	1.90
2979642--2979667	13	2.0	13	100	0	52	7	7	46	38	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2979775--2979810	3	11.7	3	88	5	54	61	2	0	36	1.11
2979931--2980219	118	2.6	110	82	12	326	25	19	15	39	1.91
2980158--2980499	136	2.6	135	86	5	457	26	21	17	34	1.95
2980285--2980945	227	2.9	227	89	2	1006	25	22	16	35	1.95
2981311--2981352	15	2.8	15	92	0	75	26	26	23	23	2.00
2981365--2982146	40	20.5	37	80	11	140	40	13	17	29	1.87
2981468--2981525	28	2.0	29	90	3	91	41	15	12	31	1.84
2981459--2981630	66	2.6	67	81	9	190	38	15	18	27	1.91
2981594--2982168	40	14.4	40	94	0	965	40	12	16	30	1.86
2982039--2982107	23	3.3	23	61	23	60	39	14	14	31	1.86
2987399--2987445	18	2.6	17	77	16	51	44	17	6	31	1.73
2991950--2991996	2	24.0	2	81	12	53	42	4	2	51	1.33
2991939--2991979	21	2.0	21	90	0	64	36	4	0	58	1.20
2992028--2992089	18	3.5	18	69	20	58	25	6	1	66	1.25
2992027--2992103	35	2.2	35	86	6	104	24	5	2	67	1.24
2992241--2992286	17	2.8	16	81	18	58	15	13	0	71	1.14
2992339--2992387	18	2.7	18	78	12	55	12	0	8	79	0.93
2992348--2992387	19	2.2	18	86	4	53	12	0	7	80	0.91
2993935--2993973	17	2.3	17	90	0	60	17	23	41	17	1.91
2993971--2994009	19	2.1	19	90	0	60	25	25	25	23	2.00
2994949--2995045	42	2.3	42	96	0	176	8	12	34	45	1.72
2995057--2995116	3	19.7	3	93	3	102	63	1	0	35	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2995761--2995797	20	1.9	19	89	10	58	45	10	24	18	1.81
2995944--2996012	35	1.9	37	88	5	106	46	4	0	49	1.21
2998108--2998167	31	1.9	31	96	0	111	21	13	16	48	1.80
3001657--3001697	18	2.3	18	84	12	50	70	4	2	21	1.18
3003791--3003824	2	16.5	2	93	6	59	50	0	2	47	1.16
3006821--3006867	11	4.2	11	78	13	51	21	2	2	74	1.03
3008454--3008478	12	2.1	12	100	0	50	40	8	8	44	1.63
3008364--3008604	72	3.3	73	84	7	274	42	4	7	44	1.54
3008419--3008591	34	4.9	34	74	17	93	42	5	8	44	1.56
3008689--3008721	5	7.0	5	86	13	52	39	0	0	60	0.97
3009946--3010029	4	21.0	4	71	18	59	21	3	2	72	1.11
3009941--3010028	29	3.0	29	80	12	99	21	3	2	72	1.10
3009946--3009998	11	4.7	11	81	11	63	24	0	0	75	0.80
3009952--3010007	18	3.1	17	77	12	58	23	1	0	75	0.90
3010068--3010152	43	2.0	41	86	13	120	32	3	3	60	1.31
3010126--3010162	2	18.5	2	100	0	74	48	0	0	51	1.00
3015263--3015591	84	4.0	83	83	5	362	31	24	19	24	1.98
3015486--3015722	119	2.0	119	86	2	332	28	26	20	24	1.99
3015631--3016095	84	5.6	83	81	4	560	29	24	20	24	1.99
3015434--3015802	204	1.8	200	87	3	542	28	26	20	24	1.99
3015355--3015874	284	1.8	282	85	3	729	29	25	20	24	1.99
3015602--3016148	249	2.2	249	92	0	905	29	25	19	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3015604--3016140	165	3.2	163	77	7	519	29	24	19	25	1.99
3015604--3016167	84	6.8	81	77	7	436	29	24	20	25	1.99
3016738--3016773	2	18.0	2	94	0	63	50	2	0	47	1.15
3016820--3017070	72	3.3	74	81	8	245	42	4	7	45	1.53
3018330--3018385	5	11.6	5	80	17	57	17	1	0	80	0.80
3018327--3018374	11	4.6	11	85	12	66	20	0	0	79	0.74
3018454--3018488	2	17.5	2	100	0	70	48	0	0	51	1.00
3019139--3019244	56	1.9	54	88	3	158	41	12	12	33	1.80
3019482--3019542	2	30.0	2	93	3	104	47	0	3	49	1.18
3023052--3023107	29	1.9	29	92	0	94	35	10	19	33	1.87
3037204--3037244	21	2.0	21	90	0	64	36	9	0	53	1.34
3039471--3039533	23	2.8	23	80	2	56	38	3	3	55	1.32
3040945--3040994	17	2.9	17	87	3	73	42	2	2	54	1.23
3041801--3041841	10	4.1	10	87	0	55	29	26	0	43	1.55
3041888--3041920	16	1.9	18	88	11	52	36	3	0	60	1.12
3043464--3043532	25	2.8	24	78	10	68	75	0	8	15	1.04
3043483--3043523	15	2.6	16	81	14	50	78	0	7	14	0.96
3043587--3043637	18	2.6	19	85	11	68	64	3	1	29	1.22
3043830--3043920	19	4.6	19	70	17	60	61	2	3	32	1.24
3044392--3044493	37	2.8	37	84	0	123	31	13	13	41	1.84
3044726--3044776	22	2.3	22	96	0	93	1	37	15	45	1.58
3045267--3046326	106	10.0	106	90	0	1548	22	18	24	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3046331--3046468	37	3.8	36	78	8	138	39	14	18	26	1.90
3047215--3047291	22	3.5	22	87	0	118	23	10	24	41	1.85
3047924--3047972	16	3.3	15	75	25	50	0	14	6	79	0.91
3047921--3047980	31	1.9	31	86	6	86	0	15	5	80	0.88
3047911--3047982	11	6.3	11	73	9	63	0	13	5	80	0.88
3052560--3052610	18	2.6	19	85	11	68	64	3	0	31	1.11
3052590--3052652	27	2.4	27	76	7	67	73	7	0	19	1.08
3052736--3052768	2	16.5	2	93	0	57	51	3	0	45	1.16
3053364--3053465	37	2.8	37	87	0	132	31	12	14	41	1.84
3058123--3058474	175	2.0	175	98	0	686	19	32	22	25	1.97

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23