genome.fa.s8539.2.7.7.80.10.50.1000.5.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: VEPZ01008539.1 Hibiscus syriacus cultivar Beakdansim tig00111427_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6067759

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   

This is table  5  of  31  ( 3630 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)
692827--692868	20	2.0	21	95	4	77	38	4	9	47	1.57
697186--697218	2	16.5	2	100	0	66	51	0	0	48	1.00
697955--698016	32	1.9	32	93	0	106	32	14	6	46	1.70
707096--707136	15	2.7	15	85	11	57	56	26	2	14	1.51
709034--709092	23	2.6	22	83	2	73	23	25	27	23	2.00
714925--714976	19	2.7	19	94	5	88	19	19	30	30	1.96
714880--715034	83	1.9	84	83	4	206	29	17	23	30	1.97
716784--716822	20	2.0	20	94	0	69	23	17	17	41	1.91
718884--718945	25	2.5	25	91	0	97	51	12	6	29	1.65
719246--719313	23	3.0	22	72	12	59	77	2	1	17	0.96
719720--719755	18	1.9	18	88	5	54	80	8	0	11	0.90
719291--720163	451	1.9	445	87	3	1261	51	12	13	23	1.74
721270--721640	203	1.8	203	85	3	532	29	18	18	33	1.94
721548--721819	91	3.0	91	90	0	409	25	22	16	36	1.94
721650--722187	227	2.4	227	91	0	855	24	23	17	34	1.95
721876--722046	91	1.9	92	90	1	272	23	23	14	38	1.92
724437--724485	21	2.4	21	96	3	91	6	16	0	77	0.96
724449--724586	14	10.1	13	67	19	59	2	20	2	74	1.05
724451--724569	37	3.1	37	72	14	91	3	19	1	75	1.03
724497--724564	11	6.5	11	75	16	72	1	25	1	72	1.02
724501--724563	9	6.4	9	74	16	54	1	26	1	69	1.06
724526--724561	18	2.0	18	100	0	72	0	33	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
729622--729681	5	11.8	5	80	19	63	16	0	0	83	0.65
729621--729685	17	4.0	16	88	11	89	16	0	0	83	0.66
729627--729671	12	3.8	12	88	11	74	15	0	0	84	0.62
729622--729685	24	2.8	24	90	9	98	17	0	0	82	0.66
729632--729681	7	6.6	7	84	15	64	16	0	0	84	0.63
730034--730092	29	2.1	28	83	3	73	47	15	1	35	1.55
739468--739517	12	4.1	12	74	23	50	14	10	10	66	1.46
745152--745215	27	2.3	26	77	17	60	26	12	12	48	1.76
749394--749508	37	3.1	37	86	3	153	34	21	22	20	1.97
749403--749524	37	3.3	36	85	4	147	31	22	21	24	1.98
749510--750656	215	5.3	215	92	1	1879	33	15	18	32	1.93
750100--750201	42	2.5	41	80	1	114	25	23	21	29	1.99
750311--750397	42	2.1	42	86	0	120	26	19	20	33	1.97
750552--750630	41	1.9	41	86	2	113	22	21	21	34	1.97
750572--750652	41	2.0	41	82	4	101	25	20	23	29	1.99
753711--753747	19	1.9	19	94	0	65	51	13	0	35	1.41
760423--760473	21	2.6	20	85	11	70	27	21	17	33	1.96
772606--772653	19	2.5	19	79	3	51	50	6	12	31	1.65
775056--775654	300	2.0	300	97	0	1144	39	16	12	31	1.85
776198--776257	28	2.1	28	90	0	93	36	11	21	30	1.89
783292--783359	18	3.8	18	98	0	127	5	33	0	60	1.21
785878--785957	21	3.7	21	75	6	88	32	23	22	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
786068--786170	44	2.3	43	80	6	109	30	19	11	38	1.87
788626--788684	30	2.0	30	89	0	91	33	16	11	37	1.86
790578--790618	20	2.0	20	86	9	57	14	14	21	48	1.80
794624--794664	6	6.7	6	86	5	55	82	2	12	2	0.86
794624--794664	19	2.2	18	91	4	64	82	2	12	2	0.86
794625--794669	19	2.5	17	89	7	63	82	2	11	4	0.91
800292--800348	2	28.5	2	100	0	114	49	0	0	50	1.00
801050--801329	140	2.0	140	100	0	560	30	24	10	34	1.89
823957--823986	15	2.0	15	100	0	60	33	33	6	26	1.83
825146--825202	6	9.5	6	98	0	87	33	10	17	38	1.84
825136--825198	12	5.4	12	92	3	85	33	7	17	41	1.79
825136--825202	18	3.8	18	90	3	84	32	8	17	40	1.81
832301--832332	16	2.0	16	100	0	64	56	25	12	6	1.59
832398--832472	10	7.7	10	67	21	52	58	21	10	9	1.59
832405--832471	16	4.2	16	90	0	98	59	22	8	8	1.55
832402--832466	32	2.0	32	93	0	112	58	23	10	7	1.57
833696--833762	33	2.2	29	78	19	75	29	17	26	25	1.98
833987--834048	24	2.6	24	86	0	88	53	22	11	12	1.71
836169--836211	20	2.2	20	83	8	52	37	4	2	55	1.33
843475--843527	22	2.4	22	90	0	88	24	24	26	24	2.00
849070--849141	30	2.4	29	77	6	83	50	13	9	26	1.73
853310--853352	2	21.5	2	100	0	86	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
853652--853972	36	8.9	36	91	0	446	20	26	21	31	1.98
853640--853937	143	2.1	143	92	1	490	20	25	22	31	1.98
856841--857085	122	2.0	122	100	0	490	27	26	22	23	1.99
859506--859569	23	2.8	24	76	9	71	59	14	7	18	1.58
859733--859780	24	2.0	24	95	0	87	60	18	8	12	1.57
859734--859791	14	4.4	14	70	16	52	58	18	8	13	1.61
862107--862155	13	3.8	13	88	0	80	32	18	14	34	1.91
867858--867905	24	2.0	24	87	0	69	45	6	8	39	1.59
867970--868025	15	4.0	14	78	17	55	23	5	0	71	1.06
867974--868019	20	2.3	20	81	7	58	23	4	0	71	1.03
872939--873012	24	3.1	24	88	0	103	32	27	17	22	1.97
880950--881073	37	3.4	35	77	8	124	51	4	7	37	1.48
881054--881142	38	2.4	36	77	17	85	43	4	7	43	1.53
883629--883675	18	2.4	20	82	10	53	46	0	4	48	1.21
888338--888372	17	1.9	19	88	11	56	51	0	17	31	1.45
892911--892952	11	3.8	11	87	12	68	54	0	14	30	1.40
892910--892952	6	7.7	6	85	15	65	53	0	13	32	1.41
892910--892952	22	1.9	23	95	4	79	53	0	13	32	1.41
893267--893324	25	2.3	25	100	0	116	44	3	8	43	1.51
893282--893378	25	3.9	24	78	10	81	38	2	11	48	1.51
896832--896859	14	2.0	14	100	0	56	35	14	21	28	1.92
899187--899242	25	2.2	25	83	6	67	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
914152--914208	30	1.9	29	92	3	96	36	19	12	31	1.89
920022--920046	11	2.3	11	100	0	50	16	0	56	28	1.41
921396--921427	15	2.0	17	88	11	50	81	0	9	9	0.88
921390--921433	21	2.0	23	86	8	65	79	0	9	11	0.93
921436--921525	7	12.9	7	100	0	180	72	0	27	0	0.85
942429--942499	32	2.2	32	94	0	124	33	33	8	23	1.85
942429--942513	32	2.5	33	87	11	111	32	32	8	25	1.86
946068--946352	147	1.9	147	83	2	367	17	19	20	43	1.88
949975--950188	63	3.4	63	76	16	167	43	8	5	41	1.59
955099--955149	16	3.1	16	72	13	50	19	19	15	45	1.86
955184--955333	73	2.1	72	89	1	228	37	12	16	33	1.87
955207--955334	36	3.5	36	75	2	130	38	13	17	31	1.88
959217--959247	8	3.8	8	91	8	53	0	16	0	83	0.64
975786--975826	13	3.0	13	89	7	55	70	7	0	21	1.11
976894--976942	3	16.7	3	83	12	66	61	0	0	38	0.96
988976--989007	13	2.4	13	94	5	55	75	6	0	18	1.01
990567--990659	21	4.5	21	78	4	100	39	18	24	17	1.91
990567--990659	41	2.3	41	100	0	186	39	18	24	17	1.91
990586--990720	41	3.3	41	83	6	141	38	21	20	19	1.94
990648--990762	20	5.7	20	83	2	104	32	26	17	24	1.97
990645--990782	41	3.4	41	79	6	145	34	24	16	23	1.95
990950--990993	22	2.0	22	95	0	79	20	45	15	18	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
991257--991294	20	1.9	20	88	0	58	13	15	21	50	1.78
991431--991485	25	2.2	24	81	9	65	20	7	18	54	1.66
992614--992658	18	2.5	18	88	0	72	26	44	15	13	1.83
993133--993177	20	2.3	20	84	3	65	37	20	24	17	1.93
993161--993218	14	3.4	19	71	24	65	46	18	18	15	1.84
993177--993234	14	3.9	14	75	16	62	48	20	17	13	1.81
993161--993237	32	2.4	33	95	2	138	45	20	19	14	1.85
993249--993306	14	3.9	14	75	16	62	10	17	24	48	1.78
993244--993322	32	2.4	33	93	2	133	11	18	22	46	1.81
993307--993359	20	2.7	19	82	8	61	16	26	20	35	1.94

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