genome.fa.s8041.2.7.7.80.10.50.1000.14.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: VEPZ01008041.1 Hibiscus syriacus cultivar Beakdansim tig00110528_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4970990

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

This is table  14  of  21  ( 2430 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)
3175278--3175315	20	1.9	20	88	0	58	15	39	28	15	1.89
3177082--3177296	116	1.8	118	84	4	292	50	5	16	27	1.66
3178318--3178348	16	1.9	16	93	0	53	51	9	12	25	1.70
3185351--3185391	15	2.8	15	88	3	57	68	2	9	19	1.29
3197082--3197107	12	2.2	12	100	0	52	15	7	7	69	1.35
3197990--3198033	13	3.4	13	93	0	70	34	18	18	29	1.94
3207428--3207470	18	2.3	19	92	4	70	67	0	4	27	1.10
3208067--3208116	24	2.0	25	81	14	59	64	0	24	12	1.27
3209510--3209824	46	6.9	46	91	1	508	34	21	7	36	1.81
3209915--3210029	61	1.9	61	85	0	158	29	26	19	24	1.98
3213613--3213678	5	12.2	5	77	16	53	1	18	1	78	0.90
3213605--3213673	16	4.3	16	77	18	56	1	17	1	79	0.88
3213607--3213693	14	6.4	13	74	15	52	2	18	2	77	0.99
3213606--3213673	31	2.2	31	82	12	77	1	17	1	79	0.88
3213605--3213673	32	2.1	31	84	12	86	1	17	1	79	0.88
3213640--3213693	23	2.2	26	83	9	69	3	16	3	75	1.08
3213607--3213679	6	11.8	6	73	23	55	1	17	1	79	0.88
3215922--3215953	13	2.5	13	94	0	55	40	18	21	18	1.91
3216031--3216072	21	2.0	21	95	0	75	26	28	16	28	1.97
3216465--3216790	46	7.2	46	88	2	482	34	21	7	37	1.81
3216517--3216587	22	3.1	22	64	28	58	35	21	9	33	1.86
3216521--3216595	24	3.2	24	64	27	61	33	22	9	34	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3223619--3224010	195	2.0	193	98	2	750	37	13	18	31	1.89
3224061--3224111	21	2.4	21	90	0	84	39	13	15	31	1.87
3224102--3224153	20	2.6	20	78	6	61	30	13	30	25	1.94
3224536--3224744	54	3.9	53	84	4	271	33	15	16	34	1.90
3224531--3224751	106	2.1	106	86	5	313	32	15	17	34	1.91
3228841--3228878	18	2.1	18	95	0	67	42	13	28	15	1.85
3231530--3231749	54	4.1	54	92	0	368	29	17	19	33	1.95
3236217--3236253	10	3.7	10	85	0	56	59	18	18	2	1.50
3236521--3236548	14	2.0	14	100	0	56	42	0	7	50	1.30
3241211--3241319	31	3.4	31	71	14	103	21	20	20	38	1.94
3241189--3241318	66	2.0	66	89	3	199	19	20	22	37	1.94
3250283--3250368	42	2.0	43	86	2	120	33	20	11	33	1.89
3252089--3252134	21	2.2	20	85	11	58	45	2	0	52	1.13
3253325--3253370	20	2.3	20	82	10	60	21	6	6	65	1.39
3259537--3259664	36	3.5	37	79	9	120	28	17	11	41	1.85
3259691--3259761	37	1.9	37	85	5	99	33	16	8	40	1.79
3259856--3259926	37	1.9	36	82	2	88	32	14	7	46	1.71
3260044--3260121	29	2.6	30	90	6	115	23	24	15	37	1.93
3260074--3260166	44	2.1	44	84	9	118	22	22	17	37	1.94
3260156--3260280	37	3.4	37	70	10	112	28	16	14	40	1.88
3260117--3260345	73	3.3	67	83	9	293	27	17	14	40	1.89
3260347--3260708	131	2.7	131	81	4	424	26	28	16	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3260894--3260921	3	9.3	3	100	0	56	32	0	0	67	0.91
3261074--3261146	31	2.4	31	90	0	119	17	52	10	19	1.74
3261937--3261984	22	2.2	22	100	0	96	12	14	25	47	1.79
3267938--3267985	8	5.4	9	79	20	57	75	0	2	22	0.91
3267937--3267984	21	2.4	21	86	6	73	77	0	2	20	0.88
3269660--3269702	3	14.0	3	81	13	52	67	0	4	27	1.10
3269505--3269909	201	2.0	203	96	1	751	36	9	24	29	1.88
3269861--3269911	3	16.7	3	76	11	50	66	0	3	29	1.09
3269861--3269910	18	2.7	18	84	3	64	66	0	4	30	1.10
3271367--3271434	15	4.5	15	92	1	109	10	13	0	76	1.02
3271367--3271434	7	8.9	8	83	15	90	10	13	0	76	1.02
3281616--3281645	5	6.2	5	92	7	53	83	0	0	16	0.65
3282907--3282954	4	12.0	4	79	16	55	75	0	2	22	0.91
3282907--3282954	16	3.0	17	85	11	66	75	0	2	22	0.91
3282906--3282953	20	2.4	21	86	6	73	77	0	2	20	0.88
3284430--3284486	3	18.7	3	82	10	71	68	0	3	28	1.06
3285353--3285392	18	2.2	18	100	0	80	0	10	27	62	1.27
3286954--3287008	7	8.6	7	70	25	50	65	1	0	32	1.03
3286965--3287145	15	12.6	14	71	19	92	56	4	0	38	1.21
3286965--3287175	29	7.3	29	72	17	129	55	5	0	38	1.26
3286957--3287145	37	4.8	38	70	18	120	57	4	0	37	1.20
3286955--3287149	44	4.4	43	73	21	138	57	4	0	37	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3286968--3287138	51	3.4	49	72	10	123	56	4	0	38	1.20
3286959--3287175	16	13.2	16	73	16	137	56	5	0	38	1.25
3286955--3287172	11	21.3	10	69	22	109	56	5	0	38	1.25
3287003--3287149	21	6.9	21	66	22	67	55	5	0	39	1.23
3291425--3291620	7	24.9	8	73	25	138	48	6	1	43	1.36
3291422--3291620	12	17.1	11	76	17	156	48	6	1	43	1.35
3291419--3291623	29	7.2	28	78	15	185	49	6	0	43	1.34
3291422--3291623	5	40.2	5	77	12	130	49	6	0	43	1.35
3296045--3296112	18	3.8	18	73	21	70	5	13	29	51	1.64
3296237--3296286	25	2.0	25	100	0	100	40	32	16	12	1.84
3297416--3297448	17	1.9	17	88	11	50	27	0	21	51	1.48
3297627--3297784	41	3.9	42	80	6	173	25	16	19	38	1.92
3300373--3300795	210	2.0	212	99	0	832	36	9	16	37	1.81
3303322--3303419	34	2.8	32	79	11	97	44	2	7	45	1.42
3303728--3303773	24	1.9	24	81	0	56	34	2	10	52	1.49
3304553--3304655	32	3.2	30	71	14	82	31	6	0	61	1.29
3310477--3310785	86	3.6	87	89	1	453	28	23	22	24	1.99
3312489--3312584	42	2.2	42	85	3	120	28	13	26	32	1.94
3312593--3312863	91	3.0	91	86	1	373	25	20	15	38	1.92
3314137--3314224	5	18.8	5	75	17	75	2	13	0	84	0.73
3314137--3314228	6	16.2	6	77	13	72	2	14	0	83	0.73
3314137--3314225	1	89.0	1	68	0	52	2	13	0	84	0.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3314137--3314231	8	10.9	8	77	21	86	2	14	0	83	0.75
3314142--3314228	22	4.0	21	80	18	97	2	13	0	83	0.73
3314137--3314225	26	3.4	26	80	14	103	2	13	0	84	0.72
3331778--3332011	107	2.2	106	80	11	264	47	16	14	21	1.81
3335060--3335181	35	3.5	35	69	13	99	29	34	3	32	1.74
3335544--3335584	6	6.7	6	83	5	55	80	2	17	0	0.82
3340763--3340848	35	2.5	35	84	3	102	30	33	3	32	1.75
3348126--3348378	127	2.0	126	89	2	391	22	19	4	53	1.63
3380907--3380956	25	2.0	26	92	4	84	58	6	18	18	1.59
3381901--3381930	15	2.1	14	93	6	51	6	0	3	90	0.56
3384658--3384706	21	2.4	21	83	10	57	69	2	4	24	1.17
3390476--3390615	45	3.1	45	81	6	167	35	12	15	37	1.85
3390881--3391117	58	4.1	58	80	6	243	37	7	13	41	1.73
3390953--3391166	58	3.8	57	81	8	195	40	4	12	43	1.61
3391074--3391258	99	1.9	96	83	7	239	39	3	10	45	1.57
3391326--3391401	39	1.9	39	83	0	98	42	2	6	48	1.43
3393362--3393468	42	2.5	42	87	0	160	21	10	21	46	1.80
3393741--3393784	20	2.2	20	83	4	52	45	9	9	36	1.68
3394894--3394941	20	2.5	19	86	6	62	33	12	22	31	1.91
3395427--3395639	55	3.9	55	86	2	311	38	9	16	34	1.82
3395899--3396035	47	2.9	47	82	12	163	32	10	23	34	1.88
3396042--3396137	46	2.1	46	90	0	147	41	11	22	23	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3405120--3405294	95	1.8	95	86	0	251	40	12	19	27	1.88
3415541--3416025	55	8.7	55	88	1	646	34	11	18	35	1.87
3416235--3416371	49	2.9	48	78	6	145	32	10	23	34	1.88
3417732--3417767	14	2.5	15	86	9	56	44	0	0	55	0.99
3419528--3419768	49	4.9	49	89	2	349	41	15	17	24	1.89
3420278--3420323	23	2.0	23	83	8	58	34	2	0	63	1.07
3424099--3424398	44	6.9	44	85	1	388	40	10	22	26	1.86
3424099--3424398	131	2.3	131	86	2	406	40	10	22	26	1.86
3426601--3426650	19	2.6	19	93	0	82	26	28	14	32	1.94
3432824--3432858	18	1.9	18	94	0	61	25	34	20	20	1.96

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