genome.fa.s7822.2.7.7.80.10.50.1000.3.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: VEPZ01007822.1 Hibiscus syriacus cultivar Beakdansim tig00110159_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1828853

Tables:   1   2   3   4   5   6   7   8   9   10   

This is table  3  of  10  ( 1099 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)
432155--432204	20	2.4	21	83	6	75	46	0	6	48	1.27
432460--432505	19	2.4	19	82	7	58	39	6	4	50	1.48
435256--435577	162	2.0	162	92	0	536	30	15	11	42	1.83
435525--436096	112	5.1	112	92	1	882	26	15	13	45	1.83
435525--436097	222	2.6	221	90	2	878	26	15	13	45	1.83
438287--438317	2	15.5	2	100	0	62	48	0	0	51	1.00
442406--442449	21	2.2	20	87	4	61	36	13	0	50	1.42
454999--455065	2	35.0	2	77	19	63	47	0	2	49	1.16
454999--455074	38	2.0	38	89	5	118	44	0	5	50	1.24
455055--455133	36	2.2	36	86	6	108	44	5	5	45	1.47
455324--455473	36	4.1	37	82	10	193	40	4	8	46	1.54
455324--455494	74	2.3	72	84	7	220	42	4	7	46	1.50
455323--455492	36	4.7	36	80	12	163	42	4	7	46	1.50
455523--455561	14	2.7	14	84	4	51	25	2	0	71	0.98
459625--459826	99	2.0	99	90	3	318	34	18	17	29	1.94
461012--461517	85	6.0	85	85	2	648	34	20	18	26	1.95
462120--462238	36	3.2	36	83	4	141	43	3	7	45	1.49
462242--462290	10	5.0	9	85	9	53	26	2	0	71	0.97
462242--462291	19	2.5	20	87	6	66	28	2	0	70	0.99
463476--463533	17	3.4	18	77	15	54	27	1	0	70	0.97
463900--463957	21	3.0	19	70	20	57	51	1	3	43	1.28
463955--463992	14	2.7	14	100	0	76	36	7	0	55	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
463956--464001	7	6.4	7	77	22	51	34	8	0	56	1.30
464013--464908	487	1.8	493	89	6	1411	48	7	11	32	1.66
465054--465393	2	169.0	2	70	17	125	51	3	5	39	1.42
465058--465175	44	2.7	44	94	2	202	52	1	3	42	1.28
465255--465373	44	2.6	46	90	5	206	50	1	9	38	1.44
466648--466755	21	5.2	20	78	8	92	38	22	17	21	1.93
466638--466718	41	2.0	42	87	7	121	37	20	17	24	1.94
466706--466759	21	2.6	21	96	0	99	42	22	14	20	1.88
475667--475729	32	1.9	33	90	6	101	57	7	4	30	1.48
476511--476545	17	2.1	17	89	10	54	40	0	2	57	1.14
495808--495950	72	2.0	73	83	4	182	30	8	13	47	1.72
497989--498067	37	2.1	37	97	0	149	41	21	8	27	1.83
499992--500035	18	2.5	18	81	3	54	47	0	0	52	1.00
505139--505193	24	2.3	24	100	0	110	29	16	25	29	1.97
513227--513271	23	2.0	23	91	8	74	42	8	0	48	1.34
518538--518841	66	4.6	66	89	4	434	29	17	14	38	1.89
518617--518804	36	5.6	36	65	14	130	28	17	15	39	1.90
518724--518835	30	3.5	30	69	13	98	30	15	14	40	1.86
519815--519911	21	5.0	19	79	14	117	49	10	11	28	1.71
519815--519911	18	5.1	18	80	13	113	49	10	11	28	1.71
519815--519911	39	2.5	39	96	0	176	49	10	11	28	1.71
524815--524921	2	53.5	2	100	0	214	50	0	0	49	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
528696--528790	43	2.2	42	96	1	172	48	11	15	24	1.78
530841--530894	26	2.1	26	82	0	63	42	18	7	31	1.78
534031--534084	2	27.0	2	100	0	108	50	0	0	50	1.00
534648--534698	21	2.4	21	86	0	75	27	19	15	37	1.92
534705--534781	20	3.8	21	75	13	72	27	22	12	37	1.91
534693--534780	40	2.2	40	87	4	124	26	23	12	37	1.90
534937--534976	16	2.5	16	83	0	53	27	5	0	67	1.11
535978--536013	18	2.0	18	94	0	63	55	25	2	16	1.55
536224--536300	33	2.5	29	85	8	91	27	16	23	32	1.96
536253--536309	29	2.0	29	85	0	78	29	19	26	24	1.98
537810--537932	42	2.9	42	87	0	174	22	19	35	21	1.96
537810--537927	21	5.7	20	79	8	119	22	19	35	22	1.96
537983--538038	28	2.0	28	96	0	103	26	25	26	21	1.99
538251--538372	63	1.9	63	81	6	149	31	33	13	21	1.91
540115--540158	20	2.2	20	83	0	52	15	18	18	47	1.83
540687--540735	20	2.5	20	96	0	89	18	12	24	44	1.84
543324--543539	71	3.0	71	91	0	333	32	6	7	53	1.54
543370--543494	40	3.3	41	64	23	112	32	4	5	56	1.43
553828--553922	36	2.7	33	75	15	93	49	2	2	46	1.25
558258--558314	21	2.7	21	91	0	96	35	17	17	29	1.93
558686--558743	2	30.0	2	89	6	93	46	1	0	51	1.11
558770--558887	31	3.5	35	80	15	124	43	5	4	47	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
558831--558877	24	2.0	24	82	0	58	44	6	4	44	1.49
558908--558965	18	3.3	18	80	7	57	31	1	0	67	1.01
560254--560305	15	3.5	15	77	15	54	19	1	3	75	1.06
560245--560291	21	2.2	21	85	10	69	19	4	0	76	0.95
560354--560411	11	5.0	12	75	12	59	15	6	0	77	0.97
560344--560411	21	2.9	25	77	20	83	16	8	0	75	1.05
560346--560410	34	1.9	34	84	6	87	15	9	0	75	1.04
565553--565991	84	5.2	84	84	5	532	30	23	19	26	1.98
565553--566680	165	6.9	164	76	10	854	30	24	19	25	1.98
565994--566680	84	8.2	83	77	6	638	30	24	19	25	1.98
565553--566680	249	4.6	249	89	3	1717	30	24	19	25	1.98
567276--567315	15	2.6	15	88	4	53	40	2	2	55	1.27
567348--567421	34	2.3	31	88	11	105	45	2	4	47	1.35
567390--567448	24	2.6	23	78	5	75	45	3	5	45	1.42
567502--567546	12	4.0	12	77	16	51	24	2	0	73	0.95
567503--567548	14	3.1	15	82	17	53	21	2	0	76	0.90
567521--567560	18	2.2	18	86	8	55	15	5	0	80	0.88
567509--567560	15	3.5	15	80	15	54	17	3	0	78	0.89
567515--567560	21	2.4	19	85	10	58	15	4	0	80	0.86
568877--568915	2	19.5	2	94	0	69	46	0	2	51	1.14
568925--568965	11	3.9	10	87	12	64	17	2	0	80	0.82
568923--568995	23	3.2	22	81	16	87	15	8	0	76	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
570385--570415	10	3.1	10	95	0	53	32	32	0	35	1.58
570455--570495	18	2.3	18	91	4	66	29	4	2	63	1.28
572170--572204	18	1.9	18	88	0	52	25	22	20	31	1.98
572789--572873	35	2.5	33	78	14	91	25	8	10	55	1.62
588707--588769	32	2.0	32	87	6	92	44	1	7	46	1.42
588766--589155	39	10.6	36	76	13	262	44	3	5	45	1.46
588762--589013	37	6.8	38	78	13	149	43	4	6	46	1.49
588797--589052	76	3.4	75	81	7	234	44	3	6	46	1.46
588882--589136	39	6.9	39	82	13	265	45	3	5	45	1.42
590349--590387	11	3.5	11	82	0	51	10	2	7	79	1.02
590349--590397	22	2.2	22	85	10	64	12	2	6	79	0.99
594225--594423	95	2.1	96	91	1	328	33	15	18	33	1.92
594225--594478	95	2.7	94	88	4	327	31	15	18	33	1.93
595624--596214	167	3.5	167	90	0	878	33	24	18	23	1.97
595619--596235	84	7.4	83	84	2	770	33	24	18	23	1.97
595619--596244	251	2.5	250	83	3	828	34	24	18	23	1.97
596898--598073	6	204.3	6	86	13	1703	49	16	0	33	1.47
599651--599728	23	3.3	23	78	1	84	32	21	20	25	1.98
599735--599952	103	2.1	103	95	0	391	37	23	13	26	1.91
600792--600834	21	2.0	21	91	8	70	32	18	25	23	1.97
605417--605494	23	3.3	23	81	1	93	34	23	17	24	1.96
605505--605718	103	2.1	103	94	0	374	37	23	12	26	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
606559--606601	21	2.0	21	91	8	70	32	18	25	23	1.97
608641--608847	36	5.6	38	76	10	110	43	5	8	42	1.58
608640--609086	38	12.3	37	80	12	407	44	4	6	44	1.50
608681--609086	36	11.3	38	79	12	341	44	3	6	45	1.48
609088--609119	3	11.3	3	87	12	50	31	0	0	68	0.90
609360--609389	16	1.9	15	93	6	51	20	43	26	10	1.83
614589--614648	31	1.9	31	93	0	102	40	6	8	45	1.61
615136--615196	21	2.6	24	70	21	58	57	1	1	39	1.18
615163--615299	14	10.8	12	67	21	66	55	0	0	43	1.10
615184--615295	13	8.8	14	64	23	59	55	0	0	43	1.05

Tables:   1   2   3   4   5   6   7   8   9   10