genome.fa.s8593.2.7.7.80.10.50.1000.3.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: VEPZ01008593.1 Hibiscus syriacus cultivar Beakdansim tig00111542_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1058705

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 494 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)
544595--544637	22	2.0	22	100	0	86	34	0	13	51	1.42
544649--544690	22	1.9	22	95	0	75	33	0	11	54	1.37
544703--544747	22	2.1	21	95	4	81	33	2	13	51	1.53
544757--544799	22	2.0	22	95	0	77	37	0	11	51	1.39
544811--544853	22	2.0	22	95	0	77	37	0	11	51	1.39
544878--544936	31	1.9	31	92	0	100	42	10	6	40	1.65
545694--545816	3	41.0	3	100	0	246	66	0	0	33	0.92
547200--547275	35	2.2	35	90	0	116	39	22	1	36	1.63
547660--547917	128	2.0	126	91	1	417	36	14	12	36	1.84
548376--548412	15	2.4	16	86	13	51	59	5	2	32	1.34
548919--548949	2	15.5	2	100	0	62	51	0	48	0	1.00
551130--551165	19	1.9	18	88	5	54	41	0	0	58	0.98
552912--553052	60	2.3	59	80	2	147	31	18	17	32	1.94
553251--553377	60	2.1	60	83	4	166	37	16	14	30	1.89
558086--558114	12	2.3	13	94	5	51	37	31	10	20	1.86
560385--560409	2	12.5	2	100	0	50	48	0	0	52	1.00
574474--574598	60	2.1	60	81	0	142	37	13	14	34	1.85
577168--577212	24	1.9	23	82	13	56	68	4	11	15	1.34
583697--583739	21	2.0	21	81	4	50	60	0	2	37	1.10
587746--587964	109	2.0	110	99	0	431	33	19	6	40	1.78
590527--590697	87	2.0	86	94	1	297	38	11	19	31	1.87
597092--597182	44	2.1	44	97	0	173	29	13	23	34	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
597511--597560	23	2.2	23	81	0	55	38	2	2	58	1.21
609793--609869	38	2.0	38	100	0	154	51	5	5	37	1.46
610988--611042	28	2.0	28	82	3	67	27	10	16	45	1.80
612202--612233	11	2.9	11	95	0	55	28	46	12	12	1.78
613451--613506	20	2.8	20	91	0	94	33	21	21	23	1.97
613494--613534	21	2.0	21	85	0	55	26	14	24	34	1.94
614789--614845	20	2.8	20	84	5	62	45	7	0	47	1.30
614807--614874	13	5.0	13	79	15	57	47	13	0	39	1.43
614789--614854	33	2.0	33	82	5	80	43	10	0	45	1.38
614828--614866	21	1.9	20	84	5	51	46	15	0	38	1.46
614930--614979	2	25.0	2	100	0	100	50	0	0	50	1.00
625390--625427	18	2.1	18	90	9	60	23	10	42	23	1.85
633548--633633	42	2.0	42	90	0	136	51	11	8	29	1.67
636246--636584	169	2.0	169	100	0	678	27	33	18	20	1.96
637636--637728	31	3.0	31	98	0	177	22	15	38	23	1.92
638217--638253	19	1.9	20	88	5	58	54	0	0	45	1.00
642039--642150	29	3.9	29	97	0	206	19	43	27	8	1.81
642164--642256	10	9.3	10	70	17	68	22	47	19	10	1.80
642174--642276	30	3.4	30	87	0	161	24	47	17	10	1.79
642837--642880	21	2.1	21	91	0	70	29	0	15	54	1.42
642855--642912	26	2.3	26	93	3	100	31	0	12	56	1.35
645576--645644	34	2.1	32	81	13	77	46	11	0	42	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
645652--645682	11	2.9	11	95	4	55	54	19	0	25	1.44
645712--645802	44	2.0	48	85	12	129	48	10	0	40	1.38
645783--645871	41	2.2	40	78	8	90	46	10	1	42	1.45
645907--645945	16	2.3	18	86	8	55	56	5	0	38	1.22
646157--646257	49	2.1	48	92	5	168	22	18	38	19	1.93
646157--646270	49	2.4	47	88	7	167	21	18	38	21	1.93
646255--646291	19	1.9	19	100	0	74	10	18	43	27	1.83
646360--646416	28	2.0	28	93	0	96	8	33	31	26	1.87
646399--646454	28	2.0	28	100	0	112	3	28	32	35	1.74
646468--646503	19	2.0	18	89	10	56	11	19	38	30	1.86
646513--646587	29	2.6	29	97	0	141	9	28	42	20	1.82
648435--648485	24	2.2	24	82	3	59	56	3	15	23	1.56
649439--649565	39	3.4	39	81	13	144	44	4	6	44	1.50
649386--649570	71	2.7	69	80	12	200	43	4	8	43	1.55
652111--652142	16	1.9	17	93	6	57	6	12	9	71	1.29
656185--656938	85	9.0	84	79	4	821	29	25	21	24	1.99
656185--656893	250	2.8	250	94	1	1186	29	25	21	23	1.99
656185--656963	165	4.7	166	83	5	874	29	25	21	23	1.99
657638--657837	39	5.7	35	74	16	164	44	4	8	43	1.55
657604--657832	39	6.3	39	76	16	156	41	4	8	44	1.55
657643--657837	71	2.8	69	80	11	202	44	4	8	43	1.54
657604--657837	108	2.2	106	80	13	246	42	4	8	44	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
658735--658769	13	2.7	13	100	0	70	40	11	48	0	1.39
667680--667746	29	2.3	29	84	0	80	44	5	22	26	1.75
667693--667749	29	2.0	29	89	0	87	42	3	28	26	1.72
694992--695023	2	16.0	2	100	0	64	50	0	0	50	1.00
695812--695860	22	2.2	23	88	3	73	63	4	4	28	1.31
713521--713622	47	2.1	48	96	1	188	27	10	21	40	1.86
713861--713903	2	21.5	2	100	0	86	48	0	0	51	1.00
717160--717188	14	2.1	14	93	6	51	27	6	0	65	1.18
718993--719032	18	2.2	18	95	0	71	27	32	22	17	1.96
722785--722891	51	2.1	50	82	1	124	21	33	28	15	1.94
723408--723481	37	2.0	37	89	5	114	36	9	12	41	1.75
724650--724703	15	3.8	14	78	9	56	61	1	9	27	1.37
725887--725936	2	25.0	2	100	0	100	50	0	0	50	1.00
726583--726627	23	2.1	22	84	12	58	26	11	17	44	1.82
729786--729924	42	3.3	42	83	6	149	24	9	16	49	1.75
755399--755864	234	2.0	226	82	7	564	37	15	15	31	1.89
761273--761575	150	2.0	150	94	0	525	20	17	17	45	1.86
764286--764433	49	3.0	49	84	2	206	35	10	20	33	1.87
777342--777479	61	2.3	60	82	6	163	36	10	13	39	1.78
779976--780011	2	18.0	2	94	0	63	50	2	0	47	1.15
781901--781966	2	34.0	2	93	6	118	50	0	0	50	1.00
782721--783162	226	2.0	222	92	3	735	45	8	7	39	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
783227--783275	21	2.3	20	86	10	71	55	10	16	18	1.69
785687--785752	33	2.0	33	87	0	96	28	1	45	24	1.62
787507--787569	19	3.4	19	95	2	110	31	3	9	55	1.48
787649--788848	197	6.1	198	92	6	1997	37	14	15	32	1.88
787662--788848	393	3.0	391	92	4	2019	37	14	15	32	1.88
790266--790327	18	3.4	18	88	0	88	38	6	33	20	1.79
790266--790327	6	10.3	6	83	0	61	38	6	33	20	1.79
790281--790331	3	17.0	3	83	0	66	37	3	33	25	1.74
790269--790331	12	5.2	12	90	0	81	36	6	33	23	1.80
790401--790515	56	2.0	57	98	1	223	20	24	13	40	1.89
791740--792757	179	5.7	184	94	5	1823	34	15	15	34	1.89
792586--792623	20	2.0	19	85	10	51	42	10	15	31	1.81
795309--795360	21	2.5	21	87	6	70	36	1	19	42	1.62
795192--796034	410	2.0	415	93	6	1447	39	8	13	38	1.75
799679--799721	21	2.0	21	100	0	86	23	9	34	32	1.87
806581--806901	160	2.0	161	99	0	635	47	4	9	38	1.56
816152--816241	29	3.2	29	75	15	107	27	1	4	66	1.18
816182--816271	18	4.9	18	72	17	78	30	0	3	66	1.07
816176--816292	26	4.4	27	78	13	118	28	0	2	69	1.02
816152--816262	55	2.0	55	94	0	195	28	0	3	66	1.14
816177--816290	3	40.7	3	67	22	61	28	0	2	68	1.03
816202--816295	10	9.4	10	77	12	79	28	0	2	69	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
820659--820790	36	3.7	35	87	3	192	34	21	25	18	1.96
854135--854177	21	2.0	21	81	0	50	30	30	25	13	1.94
854157--854309	68	2.2	69	88	4	222	26	27	28	17	1.98
854650--854708	30	2.0	30	93	0	100	40	3	23	32	1.71
854922--854989	22	3.0	22	97	2	127	19	26	27	26	1.99
861033--861075	21	2.0	21	81	0	50	30	30	25	13	1.94
861055--861207	68	2.2	68	88	4	220	26	27	28	17	1.98
861548--861606	30	2.0	30	93	0	100	40	3	23	32	1.71
861820--861887	22	3.0	22	97	2	127	19	26	27	26	1.99
864118--864152	2	17.5	2	100	0	70	48	0	0	51	1.00

Tables:   1   2   3   4   5