genome.fa.s8228.2.7.7.80.10.50.1000.17.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: VEPZ01008228.1 Hibiscus syriacus cultivar Beakdansim tig00110864_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3739947

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

This is table  17  of  20  ( 2363 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)
2960117--2960231	3	38.7	3	91	1	187	35	1	0	62	1.06
2960723--2960764	20	2.2	20	91	4	68	78	7	14	0	0.95
2961648--2961686	20	1.9	21	84	5	53	43	2	2	51	1.29
2961873--2961935	17	3.8	17	68	17	51	49	0	4	46	1.23
2973002--2973070	10	7.0	10	71	21	56	79	0	17	2	0.85
2972998--2973069	17	4.4	17	81	13	87	80	0	16	2	0.83
2973002--2973069	15	4.2	15	73	15	64	80	0	16	2	0.82
2972998--2973069	6	13.0	6	74	14	66	80	0	16	2	0.83
2973402--2973453	19	2.7	18	80	14	59	28	5	9	55	1.55
2974189--2974761	84	6.8	84	99	0	1121	26	13	22	37	1.92
2975398--2976180	113	6.9	113	94	1	1327	38	13	18	30	1.89
2976498--2976610	3	37.7	3	92	0	190	34	2	0	62	1.09
2977103--2977146	22	2.0	21	91	4	70	75	11	13	0	1.06
2978233--2978295	17	3.8	17	68	17	51	49	0	4	46	1.23
2988441--2988598	78	2.0	77	95	1	280	40	20	5	33	1.76
2988650--2988693	18	2.3	19	80	11	54	47	9	15	27	1.76
2988895--2989175	141	2.0	141	96	0	517	43	12	12	32	1.79
2989959--2990002	19	2.4	19	81	7	56	34	15	4	45	1.67
2990494--2990524	15	2.1	15	94	5	55	6	25	0	67	1.14
2991985--2992040	20	2.8	20	80	0	67	33	21	10	33	1.88
2995016--2995052	4	9.2	4	88	11	58	72	0	2	24	0.97
2997881--2997915	17	2.1	17	89	10	54	8	17	0	74	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2999308--2999568	95	2.7	95	86	4	337	33	16	17	33	1.92
3000710--3001407	84	8.3	84	85	1	934	32	24	19	23	1.98
3002940--3003093	9	16.8	9	68	21	63	20	4	1	73	1.11
3002941--3003000	20	3.2	19	79	15	72	26	0	0	73	0.84
3002941--3002985	17	2.8	17	87	12	60	28	0	0	71	0.87
3002941--3003020	27	2.9	27	83	14	85	23	2	0	73	0.95
3002938--3003078	28	4.8	29	73	23	102	20	4	0	74	1.03
3002938--3003037	45	2.3	41	77	14	103	24	3	0	73	0.98
3002938--3003019	21	4.1	19	77	17	69	24	2	0	73	0.96
3002961--3003045	27	3.1	28	81	13	79	20	4	0	75	0.98
3003107--3003142	11	3.2	11	88	7	54	22	0	0	77	0.76
3003107--3003144	20	1.9	20	94	0	67	21	0	0	78	0.74
3003105--3003144	14	2.8	14	85	14	55	22	0	0	77	0.77
3014267--3014360	25	3.7	25	78	13	95	46	3	18	31	1.64
3014293--3014360	27	2.6	25	86	6	91	47	2	16	33	1.62
3015901--3016104	55	3.7	55	86	2	275	29	21	18	29	1.97
3022167--3022221	21	2.6	21	97	0	101	32	23	7	36	1.82
3022576--3022773	55	3.6	55	90	2	299	29	21	18	30	1.97
3024259--3024318	26	2.3	26	83	8	70	53	1	6	38	1.37
3029048--3029101	24	2.2	24	96	0	99	20	14	16	48	1.81
3031911--3032215	43	7.2	42	82	4	328	25	23	19	31	1.98
3031911--3032215	85	3.6	84	83	6	332	25	23	19	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3034620--3034665	3	16.0	3	86	8	69	69	0	0	30	0.89
3040694--3040732	3	13.3	3	94	5	71	66	0	0	33	0.92
3040992--3041352	139	2.6	139	88	1	519	23	14	30	31	1.95
3041419--3041615	74	2.7	73	88	2	297	37	14	19	27	1.91
3041349--3041623	111	2.6	110	79	7	289	37	14	18	29	1.90
3041565--3041689	66	1.9	66	89	0	196	37	13	17	31	1.89
3041419--3041689	37	7.6	36	75	10	254	38	14	18	29	1.90
3041539--3042142	104	5.9	102	78	8	505	36	12	16	34	1.86
3041599--3042142	204	2.6	203	84	5	641	36	11	15	36	1.84
3044786--3044815	12	2.5	12	94	0	51	3	10	3	83	0.88
3044778--3044827	26	1.9	26	84	8	66	2	12	6	80	0.98
3044781--3044837	16	3.6	16	79	15	66	1	14	5	78	0.99
3060977--3061038	5	12.4	5	100	0	124	59	0	40	0	0.97
3075959--3075983	13	1.9	13	100	0	50	72	0	4	24	1.02
3075914--3076041	17	7.8	16	67	15	50	73	1	7	17	1.14
3075954--3076041	11	8.2	11	71	18	53	75	2	5	17	1.11
3076092--3076141	8	6.0	8	76	23	50	80	2	4	14	0.95
3076090--3076158	22	3.1	22	74	13	61	76	1	2	18	0.98
3076094--3076152	25	2.3	26	81	18	72	76	1	3	18	1.02
3077242--3077697	36	12.4	35	74	17	310	43	8	3	44	1.50
3079284--3079329	21	2.2	21	81	11	60	41	2	4	52	1.33
3080556--3080614	22	2.7	22	91	0	100	32	11	5	50	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3082517--3082714	59	3.4	59	74	4	143	46	7	7	38	1.60
3087360--3087420	31	2.0	31	100	0	122	26	19	24	29	1.99
3088181--3088231	14	3.6	14	81	0	66	21	0	29	49	1.50
3088181--3088230	21	2.4	21	79	0	64	22	0	30	48	1.51
3089055--3089282	20	11.2	20	77	9	203	41	23	19	15	1.90
3089055--3089282	62	3.8	62	87	4	306	41	23	19	15	1.90
3089349--3089528	6	30.5	6	99	0	339	32	51	16	0	1.45
3090025--3090139	6	19.5	6	99	0	216	0	16	51	32	1.45
3090237--3090611	20	18.2	19	74	19	228	17	18	26	37	1.93
3090237--3090385	66	2.3	61	86	10	201	18	18	25	37	1.93
3090244--3090555	42	7.4	42	85	7	381	17	18	26	36	1.94
3090310--3090550	62	3.9	62	87	8	323	17	18	28	36	1.93
3090265--3090610	42	8.4	40	77	14	230	17	19	26	37	1.93
3092399--3092464	16	4.1	17	74	14	59	51	24	1	22	1.57
3094359--3094420	23	2.7	23	92	2	99	19	25	32	22	1.97
3094339--3094420	23	3.7	22	85	7	96	18	25	31	24	1.97
3100077--3100127	21	2.4	21	93	0	84	17	27	35	19	1.94
3101896--3102103	100	2.1	101	97	0	391	31	15	12	39	1.85
3102386--3102435	21	2.2	24	76	20	63	64	2	0	34	1.05
3102391--3102433	20	2.0	22	86	8	63	62	2	0	34	1.08
3102427--3102494	30	2.2	31	84	7	86	54	5	0	39	1.25
3102478--3102553	24	3.0	24	77	14	82	60	2	3	32	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3102692--3102725	16	2.1	16	94	0	59	67	0	0	32	0.91
3103110--3103159	3	16.7	3	100	0	100	66	0	0	34	0.92
3104842--3104977	29	4.7	29	77	5	123	38	3	11	47	1.57
3104996--3105056	30	2.1	29	81	6	70	40	3	6	49	1.45
3112491--3113605	433	2.6	432	83	4	1370	33	13	22	29	1.93
3133697--3133750	26	2.1	26	86	3	74	42	0	1	55	1.10
3135564--3135609	17	2.6	18	76	16	51	41	2	0	56	1.11
3135564--3135614	18	2.9	18	81	18	63	43	1	0	54	1.11
3135728--3135773	22	2.1	22	91	0	74	10	6	30	52	1.62
3136735--3136781	23	2.0	23	95	0	85	51	12	23	12	1.74
3136896--3137049	83	1.9	83	90	5	249	43	11	3	42	1.56
3138830--3138890	31	2.0	31	83	0	77	57	4	9	27	1.52
3139372--3139419	24	2.0	25	95	4	89	75	6	12	6	1.19
3140163--3140223	28	2.2	28	82	11	72	39	36	4	19	1.74
3141567--3141715	54	2.7	55	84	6	187	35	8	14	41	1.76
3142060--3142099	22	1.9	20	85	10	53	25	25	22	27	2.00
3142115--3142428	54	5.6	55	77	9	278	31	10	14	42	1.81
3142115--3142421	109	2.7	111	77	12	304	31	11	14	42	1.81
3142450--3142597	54	2.8	53	83	6	165	27	7	18	45	1.76
3144146--3144588	160	2.8	160	87	0	636	35	15	21	27	1.94
3144477--3145231	118	6.5	117	79	6	685	36	14	22	25	1.93
3146458--3146510	21	2.6	22	80	14	60	20	7	1	69	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3146620--3146660	17	2.4	18	76	12	50	24	7	2	65	1.30
3151215--3151389	60	2.9	60	85	5	246	40	5	22	31	1.76
3154491--3154543	2	26.5	2	100	0	106	50	0	0	49	1.00
3156978--3157008	2	16.0	2	93	6	55	51	0	0	48	1.00
3164547--3164700	81	1.9	81	86	0	218	29	20	11	38	1.88
3164653--3164976	68	4.8	68	86	3	438	31	25	13	29	1.94
3165226--3165341	59	2.0	59	91	1	189	34	18	12	33	1.89
3166073--3166122	22	2.3	22	100	0	100	26	14	56	4	1.56
3173759--3173787	5	5.8	5	100	0	58	17	0	41	41	1.49
3175739--3175837	36	2.8	36	78	7	121	35	17	17	30	1.93

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