genome.fa.s8003.2.7.7.80.10.50.1000.13.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: VEPZ01008003.1 Hibiscus syriacus cultivar Beakdansim tig00110462_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3297763

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

This is table  13  of  14  ( 1618 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)
2936019--2936115	36	2.7	36	86	1	131	24	18	17	39	1.92
2936329--2936899	106	5.4	106	92	0	867	33	25	17	23	1.96
2942052--2942088	19	1.9	19	100	0	74	32	10	13	43	1.79
2942134--2942158	12	2.1	12	100	0	50	32	0	0	68	0.90
2947415--2947474	20	3.0	20	87	2	84	50	8	5	36	1.55
2947414--2947474	21	3.0	20	90	4	88	49	8	6	36	1.59
2950173--2950234	28	2.2	28	100	0	124	27	24	33	14	1.94
2960255--2960297	14	3.1	14	82	0	59	41	0	11	46	1.40
2961183--2961207	12	2.1	12	100	0	50	64	0	0	36	0.94
2965158--2965549	146	2.7	146	79	6	422	20	22	21	34	1.97
2965673--2965705	17	1.9	17	93	0	57	45	12	9	33	1.73
2965734--2965778	20	2.2	20	92	0	72	28	24	11	35	1.90
2966086--2966152	3	21.7	3	82	11	82	59	1	1	37	1.16
2969738--2969783	24	2.0	24	83	8	60	54	4	4	36	1.40
2969749--2969800	23	2.2	23	82	3	59	53	1	1	42	1.23
2971633--2971835	40	5.1	40	74	14	134	29	21	18	30	1.97
2971640--2971839	20	10.0	19	81	7	98	30	22	19	29	1.97
2971725--2971849	20	6.2	20	93	0	187	27	25	20	26	1.99
2972680--2972733	24	2.2	24	96	0	99	20	16	20	42	1.89
2975220--2975254	18	1.9	18	94	0	61	54	25	2	17	1.57
2975414--2975767	20	18.6	20	73	11	280	34	21	17	26	1.96
2975414--2975671	54	4.7	54	82	5	318	35	22	16	25	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2975414--2975730	168	1.9	168	85	0	445	34	21	17	26	1.95
2975757--2975814	20	2.9	21	82	10	77	12	17	27	43	1.84
2975918--2975972	29	1.9	28	85	3	74	47	18	0	34	1.49
2975913--2975974	14	4.3	14	79	6	70	46	16	0	37	1.47
2977020--2977054	12	2.9	12	100	0	70	65	0	17	17	1.27
2977392--2977478	21	4.1	21	73	5	77	26	19	33	20	1.97
2978028--2978073	20	2.3	20	92	0	74	17	21	26	34	1.95
2978223--2978272	18	2.8	18	100	0	100	42	6	20	32	1.76
2979993--2980106	20	5.8	20	85	1	106	45	22	15	15	1.84
2980493--2980603	22	4.9	22	85	12	152	18	10	43	27	1.83
2980474--2980611	70	2.0	69	91	2	206	21	9	43	26	1.82
2980779--2980872	20	4.7	20	85	0	116	27	18	23	30	1.97
2980856--2980911	20	2.8	20	91	0	94	26	17	16	39	1.91
2980779--2980911	40	3.3	40	78	4	117	27	18	21	33	1.96
2981554--2981605	15	3.5	15	84	5	70	38	7	21	32	1.82
2987795--2987900	53	2.0	54	88	1	160	47	2	17	32	1.63
2988081--2988121	16	2.5	17	80	11	50	39	0	0	60	0.96
2994432--2994495	3	21.3	3	100	0	128	34	0	65	0	0.93
2997316--2997351	18	2.0	18	88	0	54	19	36	19	25	1.95
3002088--3002434	21	17.4	20	75	7	219	22	19	22	35	1.96
3002161--3002377	40	5.3	40	77	6	177	23	19	23	33	1.97
3002156--3002434	61	4.6	59	80	7	263	22	19	23	34	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3002088--3002394	101	3.1	102	85	5	369	22	19	22	34	1.96
3002284--3002442	40	3.9	40	85	3	228	22	20	24	33	1.97
3002383--3002447	21	3.2	21	67	6	62	20	23	21	35	1.96
3002531--3002556	6	4.3	6	100	0	52	34	50	15	0	1.45
3002856--3002946	19	4.4	20	76	17	105	30	28	5	35	1.80
3002867--3002948	44	1.9	41	87	7	119	32	29	6	31	1.82
3004044--3004111	7	8.6	7	73	23	55	75	1	4	19	1.06
3004139--3004210	25	3.0	24	82	11	94	75	0	4	20	0.97
3004175--3004236	12	5.3	12	74	18	51	75	6	0	17	1.00
3005304--3005344	2	20.5	2	100	0	82	48	0	0	51	1.00
3006295--3006351	24	2.6	22	82	15	73	24	22	21	31	1.98
3009947--3010035	18	4.9	18	87	0	124	29	34	19	16	1.94
3009952--3010035	36	2.3	36	93	0	141	30	35	19	14	1.91
3010304--3010330	6	4.5	6	100	0	54	33	18	0	48	1.49
3010816--3010936	64	1.9	63	86	8	174	27	20	18	33	1.96
3014984--3015127	72	2.0	72	93	2	245	38	14	22	24	1.92
3019162--3019456	157	1.9	157	93	0	509	37	14	14	32	1.88
3020920--3020958	20	2.0	20	94	0	69	20	46	0	33	1.51
3023329--3023704	84	4.5	84	80	4	330	27	18	21	32	1.97
3023581--3023852	145	1.9	147	82	3	350	26	17	23	32	1.97
3023730--3024290	84	6.8	83	83	3	650	24	18	23	33	1.96
3023730--3024289	248	2.3	249	84	4	702	24	18	23	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3024742--3024837	43	2.2	43	88	0	138	21	18	31	28	1.97
3025047--3025166	64	1.9	64	91	3	197	33	10	19	37	1.85
3025428--3025510	32	2.6	32	84	3	96	36	19	10	33	1.86
3026747--3026804	2	29.0	2	92	0	98	50	3	0	46	1.18
3028339--3028377	19	2.1	19	100	0	78	25	33	10	30	1.89
3032410--3032465	20	2.7	21	88	2	78	30	25	21	23	1.99
3032465--3032546	44	1.9	41	87	7	119	32	6	28	32	1.82
3032467--3032557	19	4.4	20	76	17	105	36	5	27	30	1.80
3032999--3033192	104	1.9	104	83	4	257	24	10	14	50	1.74
3034964--3034997	17	2.0	17	100	0	68	41	17	17	23	1.90
3035054--3035112	20	3.0	20	74	18	59	35	20	15	28	1.93
3035106--3035160	21	2.6	21	97	0	101	43	23	16	16	1.87
3036124--3036270	20	7.2	20	68	11	102	23	17	24	34	1.96
3036140--3036214	21	3.6	21	70	10	73	20	16	24	40	1.91
3036126--3036270	41	3.6	41	92	2	231	23	17	24	35	1.95
3036352--3036436	20	4.2	20	73	10	73	40	24	16	18	1.91
3036318--3036436	41	2.9	41	80	5	132	34	24	17	23	1.96
3036545--3036605	20	3.0	21	65	13	54	31	18	26	24	1.97
3036483--3036596	20	5.6	20	68	13	54	24	17	25	32	1.97
3036648--3036753	41	2.6	41	88	4	144	33	24	18	23	1.97
3036648--3036753	20	5.2	20	71	10	90	33	24	18	23	1.97
3037705--3037810	20	5.2	20	68	10	72	24	17	23	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3037705--3037864	41	4.1	40	73	15	156	23	16	23	36	1.94
3037808--3037870	21	3.0	21	72	4	65	19	12	23	44	1.85
3038072--3038117	19	2.4	19	85	3	56	21	17	30	30	1.96
3038083--3038119	19	1.9	19	94	0	65	21	16	29	32	1.95
3039670--3039863	105	1.8	105	80	4	230	48	13	10	27	1.74
3042445--3042749	99	2.9	104	84	7	356	30	19	20	28	1.97
3042545--3042789	108	2.3	108	85	1	330	30	20	20	29	1.97
3042867--3042973	39	2.7	39	100	0	214	40	19	19	20	1.92
3046320--3047023	187	3.8	188	79	4	739	30	19	11	39	1.87
3048992--3049252	127	2.1	127	100	0	522	36	20	11	31	1.89
3066238--3066276	20	1.9	20	89	5	60	69	0	0	30	0.89
3070161--3070256	35	2.7	35	87	6	140	40	26	1	32	1.63
3071922--3071967	18	2.6	18	100	0	92	21	23	26	28	1.99
3073063--3073100	6	6.3	6	93	0	58	31	5	0	63	1.17
3074251--3074383	30	4.4	30	98	0	248	31	24	20	24	1.98
3074251--3074408	60	2.6	60	91	1	235	32	24	19	22	1.97
3078557--3078653	30	3.2	30	95	0	167	32	23	18	24	1.97
3078557--3078684	60	2.1	61	84	4	161	32	24	19	23	1.97
3079593--3079749	64	2.5	64	77	10	160	26	20	21	32	1.97
3081341--3081379	16	2.3	18	86	8	55	0	48	23	28	1.51
3089125--3089211	30	2.9	31	77	14	92	35	4	5	54	1.45
3089138--3089211	30	2.4	31	81	4	96	36	5	6	51	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3095999--3096151	60	2.6	57	84	11	195	32	19	5	42	1.74
3096000--3096151	57	2.6	57	83	8	164	32	19	5	42	1.74
3110044--3110115	31	2.2	32	80	11	85	41	4	11	43	1.59
3111583--3111790	104	2.0	104	95	0	373	43	11	10	35	1.74
3112615--3112665	18	2.9	18	76	2	59	33	25	9	31	1.88
3117523--3117552	15	1.9	16	93	6	53	40	0	0	60	0.97
3142259--3142333	39	1.9	39	97	0	141	48	10	6	34	1.64
3142349--3142405	26	2.2	25	81	12	62	38	15	12	33	1.85
3142337--3142468	70	1.9	69	93	1	228	35	15	9	39	1.80
3142344--3142483	70	2.0	68	83	6	176	38	16	10	35	1.82

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