genome.fa.s8426.2.7.7.80.10.50.1000.14.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: VEPZ01008426.1 Hibiscus syriacus cultivar Beakdansim tig00111210_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4445546

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  ( 2101 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)
3163441--3163474	10	3.2	10	91	8	50	85	0	11	2	0.71
3181763--3181821	4	13.8	4	80	16	57	76	1	20	1	0.96
3181762--3181828	4	14.0	5	83	14	56	74	2	20	1	1.03
3181776--3181827	13	4.2	12	76	11	52	76	3	19	0	0.93
3181762--3181821	17	3.4	18	82	13	81	76	1	20	1	0.96
3181763--3181821	26	2.3	26	78	18	61	76	1	20	1	0.96
3181763--3181828	22	3.0	21	75	20	64	74	3	21	1	1.04
3188471--3188510	14	2.9	14	84	0	62	55	15	12	17	1.70
3189601--3189645	23	2.0	23	81	0	54	28	26	24	20	1.99
3191471--3191515	21	2.1	21	87	0	63	15	24	28	31	1.96
3194797--3194841	23	2.0	23	81	0	54	28	26	24	20	1.99
3196655--3196699	21	2.1	21	83	0	54	17	22	28	31	1.97
3198398--3198435	17	2.2	18	95	4	69	23	0	31	44	1.54
3199353--3199418	24	2.7	25	95	4	125	54	6	0	39	1.25
3200125--3200166	10	4.6	10	77	22	56	59	21	9	9	1.57
3200129--3200161	16	2.1	16	100	0	66	57	24	12	6	1.57
3200132--3200168	16	2.3	16	90	0	56	59	21	8	10	1.56
3200510--3200550	14	2.9	14	88	0	64	63	19	7	9	1.48
3200517--3200574	24	2.4	24	88	0	89	56	22	10	10	1.62
3200520--3200575	14	4.3	13	76	17	55	55	23	12	8	1.65
3201603--3201640	17	2.1	19	90	9	62	28	5	13	52	1.61
3202621--3202703	41	2.0	41	97	0	157	27	16	7	48	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3202623--3202691	23	3.2	23	62	19	58	27	15	7	49	1.71
3204271--3204487	21	10.5	21	75	9	169	31	22	23	23	1.99
3204291--3204522	41	5.7	41	84	8	271	30	21	21	25	1.99
3204312--3204424	20	5.6	20	75	20	119	34	19	22	23	1.96
3204271--3204522	82	3.1	83	82	10	320	30	22	22	24	1.99
3204373--3204522	61	2.4	61	77	13	157	28	23	22	26	1.99
3204287--3204522	21	11.5	21	74	20	144	30	22	22	25	1.99
3205134--3205186	6	9.5	6	97	2	78	0	18	52	28	1.46
3206540--3206581	16	2.5	17	92	7	68	35	0	0	64	0.94
3206543--3206581	3	13.7	3	89	10	64	35	0	0	64	0.94
3206781--3206814	16	2.1	16	88	0	50	11	38	20	29	1.88
3212935--3213136	101	2.0	101	87	0	289	33	15	18	32	1.92
3215545--3216571	258	4.0	259	89	1	1488	33	16	16	33	1.91
3216438--3216544	42	2.6	41	86	4	135	24	21	20	33	1.97
3216468--3216551	41	2.0	41	83	2	105	22	23	23	29	1.99
3216389--3216752	189	1.9	188	85	1	505	28	18	18	34	1.95
3216760--3216948	37	4.9	37	80	10	193	31	10	14	43	1.79
3216757--3216948	38	5.0	38	80	9	201	31	9	14	44	1.78
3216884--3216966	38	2.1	39	84	4	105	26	18	16	38	1.92
3216923--3217194	61	4.4	62	81	3	300	27	20	16	35	1.94
3216921--3217194	123	2.2	122	83	3	336	27	20	16	35	1.94
3217195--3217415	89	2.5	89	88	0	307	32	20	18	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3217202--3217445	89	2.7	89	85	2	258	32	20	18	28	1.96
3217418--3217568	36	4.2	36	82	1	178	39	15	22	21	1.91
3217856--3217889	3	11.7	3	90	6	52	35	2	0	61	1.11
3219542--3219583	15	2.6	16	82	17	52	33	4	0	61	1.17
3220356--3220457	45	2.3	45	81	8	118	46	8	20	24	1.79
3224387--3224802	45	9.2	45	90	1	627	44	12	21	22	1.84
3227301--3227496	17	11.3	17	70	8	108	37	10	15	36	1.82
3227311--3227493	70	2.6	70	95	0	330	37	10	15	35	1.83
3227363--3227475	35	3.2	35	70	14	115	36	12	16	34	1.87
3232389--3232440	17	3.1	17	74	0	50	42	17	7	32	1.77
3243688--3243721	17	2.0	17	88	0	50	44	2	11	41	1.56
3246601--3246625	2	12.5	2	100	0	50	48	0	0	52	1.00
3250721--3250758	19	2.0	19	100	0	76	36	5	15	42	1.70
3254636--3254669	17	2.0	17	94	0	59	44	5	11	38	1.65
3256058--3256159	34	2.8	37	80	8	120	42	12	14	30	1.83
3256642--3256679	20	1.9	20	88	0	58	26	7	2	63	1.35
3256622--3256709	37	2.3	40	78	11	103	21	9	1	68	1.24
3260173--3260203	15	2.1	15	93	0	53	12	16	12	58	1.64
3261368--3261441	8	9.1	8	78	11	71	81	5	13	0	0.86
3261373--3261432	7	8.3	7	83	12	77	83	3	13	0	0.77
3261373--3261431	31	1.9	31	89	6	93	83	3	13	0	0.78
3262061--3262137	22	3.5	22	90	0	127	40	27	11	20	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3262325--3262392	24	2.8	24	84	4	93	38	19	2	39	1.67
3262960--3263911	106	9.0	106	92	0	1508	33	25	18	22	1.97
3264661--3264762	34	2.8	36	80	14	120	40	13	14	31	1.85
3268611--3269000	55	7.2	55	83	5	472	34	11	19	35	1.87
3268609--3269000	110	3.6	108	86	3	520	34	10	19	35	1.87
3268609--3269000	165	2.4	161	88	2	559	34	10	19	35	1.87
3275688--3275901	55	3.9	55	87	3	306	35	11	20	33	1.88
3277421--3277504	32	2.6	33	83	3	100	17	27	26	28	1.98
3277751--3277827	31	2.4	32	84	2	102	16	29	27	25	1.97
3282212--3282424	55	3.9	55	86	0	293	34	12	19	32	1.90
3282212--3282418	110	1.9	109	89	3	326	34	13	19	32	1.90
3283938--3283999	32	1.9	32	90	0	97	19	27	27	25	1.99
3290272--3290311	19	2.2	19	86	13	57	72	2	22	2	1.09
3290272--3290342	18	4.1	17	71	12	54	73	2	19	4	1.13
3290966--3291034	28	2.4	29	82	2	86	43	33	2	20	1.67
3292332--3292439	57	1.9	57	82	0	135	33	7	16	42	1.76
3294110--3294211	43	2.4	43	93	0	168	33	16	16	33	1.92
3294426--3294672	117	2.1	116	87	2	361	33	14	24	27	1.95
3294974--3295029	3	18.7	3	100	0	112	66	0	0	33	0.92
3296427--3296484	20	3.3	18	83	11	59	36	6	27	29	1.83
3296445--3296484	16	2.4	17	84	15	57	37	5	27	30	1.78
3299278--3299335	23	2.5	23	81	8	64	15	27	12	44	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3304421--3304457	14	2.8	13	87	4	56	51	0	8	40	1.32
3304413--3304492	26	3.0	26	80	7	90	45	0	11	43	1.39
3304545--3304621	8	9.9	8	71	20	56	38	1	7	51	1.39
3304545--3304597	19	3.1	17	82	17	65	39	0	9	50	1.35
3304582--3304791	42	5.0	42	84	3	230	43	4	4	47	1.45
3304580--3304790	14	15.1	14	77	9	207	42	4	4	47	1.45
3308632--3308694	32	2.0	31	90	3	99	44	12	4	38	1.64
3309156--3309193	20	1.9	20	88	0	58	18	47	7	26	1.76
3314761--3314839	20	3.8	20	73	6	77	37	16	22	22	1.93
3320617--3320693	21	3.7	21	74	16	70	37	20	16	24	1.93
3323653--3323697	22	2.0	22	95	0	81	35	2	13	48	1.54
3323881--3324024	61	2.4	61	90	2	218	29	17	26	27	1.97
3324484--3324525	21	2.0	20	82	13	50	42	4	14	38	1.66
3328949--3328974	2	13.0	2	100	0	52	50	0	0	50	1.00
3331054--3331100	23	2.1	22	84	4	58	38	2	19	40	1.63
3331032--3331174	72	2.0	73	90	1	225	40	8	16	34	1.78
3331186--3331851	200	3.4	198	87	3	923	31	14	14	39	1.86
3331179--3331851	196	3.4	198	86	3	919	31	14	14	39	1.86
3331952--3332045	30	3.2	30	79	11	81	50	1	1	47	1.15
3331963--3332049	14	6.2	14	69	9	52	47	1	1	50	1.16
3331977--3332045	28	2.5	28	74	6	70	49	1	1	47	1.19
3332064--3332132	24	2.9	25	79	18	76	43	1	2	52	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3332214--3332256	2	21.5	2	100	0	86	48	0	0	51	1.00
3332759--3332849	30	3.1	30	80	10	82	50	1	1	47	1.15
3332767--3332868	14	7.2	14	70	11	57	48	1	0	49	1.19
3332781--3332849	28	2.5	28	74	6	70	49	1	1	47	1.19
3332832--3332876	14	3.1	15	84	6	58	55	2	0	42	1.12
3333189--3333233	23	2.0	23	95	0	81	37	20	8	33	1.83
3333267--3333317	23	2.2	23	89	0	75	35	17	7	39	1.79
3333169--3333403	87	2.7	86	92	1	389	34	14	9	41	1.78
3333353--3333569	46	4.8	46	69	13	173	34	17	8	39	1.80
3333353--3333449	23	4.2	23	91	0	140	36	19	7	37	1.80

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