genome.fa.s8094.2.7.7.80.10.50.1000.15.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: VEPZ01008094.1 Hibiscus syriacus cultivar Beakdansim tig00110610_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9952466

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   31   32   
          33   34   35   36   37   38   39   40   41   42   43   

This is table  15  of  43  ( 5090 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)
2956506--2956548	13	3.3	13	96	0	77	16	44	23	16	1.86
2962410--2962465	24	2.3	24	100	0	112	42	25	0	32	1.55
2962573--2962620	22	2.2	22	78	14	55	47	0	8	43	1.33
2966091--2966120	2	15.0	2	100	0	60	50	0	0	50	1.00
2969156--2969189	18	1.9	17	88	5	50	14	20	26	38	1.91
2979570--2979628	18	3.3	18	84	11	70	77	0	11	10	0.98
2979594--2979639	18	2.5	19	92	3	76	73	0	17	8	1.07
2979649--2979683	8	4.4	8	96	0	61	80	0	20	0	0.72
2979626--2979688	16	4.1	16	77	4	67	76	0	20	3	0.93
2979701--2979787	45	1.9	45	88	4	131	34	13	28	22	1.93
2980917--2981487	134	4.3	133	81	4	648	34	21	15	28	1.94
2981672--2981731	3	20.3	3	86	3	86	31	1	0	66	1.01
2990321--2990352	2	16.5	2	93	6	57	53	0	0	46	1.00
2992450--2992549	38	2.6	38	88	0	155	32	6	18	44	1.74
2992650--2992682	17	2.0	17	88	5	50	30	15	12	42	1.83
2993189--2993348	82	2.0	80	90	4	250	37	6	6	49	1.55
2993332--2993358	2	13.5	2	100	0	54	51	0	0	48	1.00
2993250--2993427	93	1.9	93	90	3	288	37	6	5	50	1.53
2993472--2993601	22	6.1	21	78	15	110	33	6	3	56	1.42
2993438--2993514	35	2.2	35	84	11	95	33	6	5	54	1.48
2993503--2993583	36	2.3	36	89	2	119	34	7	1	56	1.35
2993640--2994067	8	57.1	8	69	23	105	38	7	2	52	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2993647--2993772	34	3.4	36	76	16	116	36	6	3	53	1.45
2993728--2993773	17	2.7	18	83	12	62	36	6	6	50	1.54
2993751--2994446	22	31.2	24	68	19	101	38	7	2	51	1.43
2993836--2993955	42	2.9	42	91	2	181	40	8	0	50	1.38
2994287--2994445	65	2.4	64	75	18	157	37	6	2	52	1.42
2994472--2994553	11	7.8	11	74	8	64	47	2	2	47	1.28
2993984--2994535	243	2.3	238	77	10	518	39	7	2	50	1.44
2994420--2994677	29	8.3	30	66	18	118	47	5	1	44	1.38
2994610--2994715	25	4.2	25	75	11	83	46	5	1	46	1.37
2994590--2994666	27	2.9	27	83	9	86	54	6	0	38	1.26
2993638--2994701	28	40.2	27	65	24	149	40	7	2	50	1.43
2994659--2994684	11	2.4	11	100	0	52	38	0	7	53	1.30
2994674--2994972	13	22.8	13	66	23	89	36	10	2	50	1.49
2994669--2994925	15	15.4	16	67	25	67	38	9	1	50	1.46
2993889--2994692	2	401.0	2	64	20	177	41	6	2	49	1.42
2994687--2994735	22	2.2	23	82	10	57	38	10	0	51	1.36
2994674--2994853	7	25.6	7	69	19	83	36	8	2	52	1.45
2994704--2994769	27	2.4	27	87	7	89	34	12	0	53	1.38
2994732--2994865	26	5.2	26	74	17	118	37	7	2	52	1.42
2994911--2994963	22	2.5	20	74	17	54	32	9	3	54	1.50
2995261--2995313	28	2.0	27	85	7	72	43	3	1	50	1.30
2995365--2995648	87	3.2	87	81	12	303	38	6	2	53	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2995564--2995618	29	2.0	29	85	7	78	36	5	5	52	1.48
2995680--2995761	11	7.8	11	74	8	64	47	2	2	47	1.28
2995786--2995909	10	12.2	11	75	14	63	50	4	4	41	1.40
2995795--2995891	39	2.5	39	91	5	153	54	5	1	39	1.29
2995352--2995891	2	271.5	2	65	20	138	43	5	2	48	1.39
2995958--2996000	7	5.3	9	74	25	51	34	9	0	55	1.32
2995987--2996099	26	4.2	26	77	15	124	38	6	2	52	1.41
2995987--2996099	52	2.1	54	87	8	160	38	6	2	52	1.41
2995895--2996252	22	18.1	20	68	19	129	37	9	2	50	1.48
2998079--2998383	148	2.1	148	98	0	592	41	8	12	37	1.74
2998580--2998679	38	2.6	38	88	0	155	32	6	18	44	1.74
2999321--2999573	93	3.0	81	79	15	269	36	7	6	49	1.56
2999382--2999559	93	1.9	93	88	3	270	37	7	5	49	1.56
2999604--2999733	22	6.1	21	78	15	110	33	6	3	56	1.42
2999570--2999646	35	2.2	35	84	11	95	33	6	5	54	1.48
2999635--2999715	36	2.3	35	89	2	117	34	7	1	56	1.35
2999635--2999993	35	9.9	36	69	20	121	35	7	3	53	1.46
2999719--2999870	28	5.6	28	77	16	76	36	7	2	52	1.45
2999748--3001137	20	67.8	21	68	21	200	40	6	2	50	1.43
2999746--3000537	23	35.2	23	68	23	200	38	6	2	51	1.42
2999576--2999942	103	3.7	103	73	19	244	35	7	3	53	1.46
2999744--3000156	8	50.6	8	66	21	71	38	6	2	52	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2999600--3001013	34	41.5	34	66	21	293	39	6	2	50	1.42
2999890--3000547	98	6.8	99	70	21	330	39	6	1	51	1.40
3000622--3000667	21	2.3	21	88	7	69	50	4	0	45	1.21
3000620--3000667	19	2.3	23	75	20	59	50	4	0	45	1.21
3000058--3000910	2	430.0	2	65	20	271	42	6	1	49	1.39
3000794--3000940	16	8.5	17	79	15	60	41	6	0	51	1.31
3000999--3001051	22	2.5	20	74	17	54	32	9	3	54	1.50
3001032--3001146	48	2.5	45	74	18	110	40	5	2	52	1.38
3001979--3002017	17	2.3	17	86	0	51	17	25	28	28	1.98
3003301--3003400	38	2.6	38	82	6	139	31	6	18	45	1.73
3004000--3004161	82	2.0	83	90	6	260	37	7	6	49	1.56
3004061--3004240	95	1.9	95	90	3	292	36	7	5	50	1.53
3004281--3004402	34	3.5	33	79	15	106	35	4	4	55	1.40
3004276--3004368	7	14.5	6	74	21	57	35	4	2	58	1.30
3004285--3004358	21	3.5	21	76	20	73	33	5	1	59	1.29
3004305--3004367	26	2.3	27	81	10	76	36	4	0	58	1.19
3004336--3004434	48	2.1	47	81	12	114	35	7	7	50	1.57
3004476--3004518	21	2.0	21	90	9	68	37	6	4	51	1.50
3004477--3004526	23	2.3	21	86	6	64	40	6	6	48	1.52
3004499--3004538	21	1.9	21	84	0	53	37	7	10	45	1.66
3004508--3004546	14	2.7	15	88	4	62	35	7	10	46	1.67
3004535--3005119	6	88.9	7	69	19	116	39	7	2	50	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3005050--3005106	29	2.0	29	89	6	89	42	3	1	52	1.28
3004706--3005091	2	193.0	2	67	20	141	40	6	2	50	1.42
3005056--3005126	29	2.5	28	82	8	81	45	5	1	47	1.35
3004990--3005149	74	2.1	75	78	15	172	41	5	2	50	1.39
3005248--3005302	26	2.1	26	93	6	94	56	7	0	36	1.27
3005226--3005302	32	2.4	31	78	10	84	55	6	1	36	1.34
3005263--3005341	41	2.0	40	87	7	115	46	5	2	45	1.38
3005445--3005494	18	2.9	18	73	5	50	40	6	4	50	1.46
3005480--3005664	13	13.8	13	65	22	55	36	9	2	51	1.46
3005409--3005759	20	16.4	20	68	22	123	38	7	2	52	1.43
3005594--3005665	6	11.1	7	79	11	57	33	8	2	55	1.44
3005514--3005726	81	2.6	82	80	10	240	38	7	2	52	1.44
3005588--3005759	6	26.8	6	71	12	51	38	5	2	52	1.40
3005730--3005760	2	16.0	2	93	6	55	48	0	0	51	1.00
3006598--3006639	17	2.5	17	84	0	57	19	28	26	26	1.98
3010261--3010387	2	64.0	2	68	18	61	49	3	3	43	1.37
3010245--3010308	20	3.1	20	78	8	74	40	4	6	48	1.49
3010286--3010387	41	2.5	40	91	1	159	50	2	2	43	1.32
3010326--3010383	11	5.5	11	78	10	50	50	1	3	44	1.29
3011378--3011421	2	22.5	2	95	4	81	50	0	0	50	1.00
3015650--3015717	29	2.4	28	80	7	84	17	20	22	39	1.92
3027901--3027989	45	2.0	45	82	4	108	46	14	13	25	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3031107--3031147	15	2.9	14	82	7	55	46	26	12	14	1.80
3035276--3035342	33	2.0	33	94	0	116	26	13	34	25	1.93
3043592--3043618	12	2.2	12	100	0	54	62	0	0	37	0.95
3045091--3045134	19	2.3	19	88	0	61	59	0	2	38	1.10
3045093--3045134	16	2.6	16	88	0	57	59	0	2	38	1.10
3045385--3045879	83	5.9	84	80	4	511	24	18	25	31	1.98
3045391--3045906	165	3.1	165	85	2	653	23	18	25	31	1.98
3046082--3047072	106	9.4	106	95	0	1698	22	18	25	33	1.96
3050637--3050665	12	2.3	13	94	5	51	68	0	0	31	0.89
3052138--3052182	17	2.5	18	85	7	56	60	0	2	37	1.09

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   31   32   
          33   34   35   36   37   38   39   40   41   42   43