genome.fa.s8759.2.7.7.80.10.50.1000.3.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: VEPZ01008759.1 Hibiscus syriacus cultivar Beakdansim tig00111851_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  899239

Tables:   1   2   3   4   

This is table  3  of  4  ( 405 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)
531847--531961	60	1.9	60	80	7	135	41	18	18	21	1.90
532075--532126	21	2.5	20	90	3	77	25	28	17	28	1.97
531987--532143	20	7.4	20	71	12	84	29	25	14	30	1.95
532205--532255	20	2.5	20	87	0	75	33	17	25	23	1.96
532257--532298	21	2.0	21	86	4	59	40	11	19	28	1.87
532263--532316	20	2.6	21	82	2	65	25	14	25	33	1.95
532268--532338	21	3.5	20	78	3	70	28	14	23	33	1.94
532622--532694	3	24.3	3	78	13	53	39	0	0	60	0.97
532624--532684	22	2.7	23	84	5	70	37	0	0	62	0.96
532666--532721	18	3.3	18	80	14	57	50	0	0	50	1.00
533045--533156	35	3.2	35	83	2	136	41	21	0	35	1.59
534177--534288	35	3.2	34	85	7	145	33	0	22	42	1.60
535332--535373	2	21.0	2	90	0	66	50	4	0	45	1.23
544791--544817	9	3.0	9	100	0	54	11	0	22	66	1.22
544848--544913	33	2.0	32	82	8	80	43	4	9	42	1.56
545250--545274	11	2.3	11	100	0	50	44	0	0	56	0.99
550107--550156	20	2.5	20	77	6	57	34	32	18	16	1.92
550107--550222	21	5.6	21	66	10	60	34	23	20	21	1.97
550270--550463	20	9.6	20	78	6	185	38	24	18	19	1.93
550270--550463	40	4.8	41	90	1	293	38	24	18	19	1.93
550289--550485	80	2.4	81	88	2	263	38	23	17	20	1.93
551021--551099	20	3.9	21	85	5	85	51	16	18	12	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
551076--551156	33	2.5	33	91	0	126	46	20	20	11	1.81
553013--553045	17	1.9	17	88	11	50	24	15	15	45	1.84
552895--553274	94	4.1	94	93	1	613	21	11	18	47	1.81
553362--553406	19	2.4	19	100	0	90	46	22	20	11	1.81
553434--553540	19	5.8	19	75	12	98	14	21	18	45	1.84
553941--554059	42	2.8	42	78	12	102	23	35	18	22	1.96
553999--554059	21	3.0	20	71	7	59	22	37	19	19	1.94
556018--556053	14	2.6	14	95	0	63	33	0	22	44	1.53
556164--556264	20	5.5	19	76	16	88	15	21	19	42	1.89
558781--558834	24	2.2	24	90	0	81	40	20	16	22	1.91
559698--559766	20	3.5	20	86	7	70	26	21	20	31	1.98
559696--559786	39	2.3	41	81	9	100	24	20	21	32	1.98
559735--559863	20	6.3	20	83	7	152	19	19	24	36	1.95
559735--559885	41	3.7	41	83	6	166	19	19	25	35	1.95
559735--559863	61	2.1	62	88	5	192	19	19	24	36	1.95
559872--559924	20	2.7	20	91	5	81	13	18	24	43	1.86
559755--559886	61	2.2	62	84	5	171	20	18	25	34	1.96
559974--560027	20	2.7	19	75	8	63	16	18	31	33	1.93
561857--561917	28	2.2	28	88	5	88	45	13	4	36	1.64
564495--564631	60	2.3	60	79	5	143	30	15	18	35	1.92
575089--575203	50	2.3	50	81	0	131	42	21	6	28	1.79
575118--575224	50	2.1	50	89	0	160	39	24	9	27	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
586217--586249	2	16.5	2	100	0	66	51	0	0	48	1.00
586239--586354	61	1.9	61	100	0	232	39	7	18	34	1.79
587863--587929	33	2.0	33	94	0	116	38	19	14	26	1.91
594678--594776	31	3.2	31	88	2	101	25	24	10	40	1.86
594701--594777	31	2.5	31	97	0	145	27	20	9	42	1.82
594860--594888	3	9.7	3	100	0	58	0	31	0	68	0.89
597524--597562	16	2.4	16	80	16	53	35	23	20	20	1.96
600725--600776	22	2.3	23	77	12	54	65	5	0	28	1.16
609969--610059	2	49.5	2	67	20	56	50	1	0	48	1.08
610133--610209	36	2.1	36	83	4	93	18	28	15	37	1.91
613987--614554	281	2.0	279	95	1	1012	31	20	7	40	1.80
615101--615177	37	2.1	37	100	0	154	50	2	2	44	1.29
616350--616466	33	3.2	39	61	24	99	34	2	8	54	1.44
616352--616504	71	2.2	68	94	5	263	30	3	7	58	1.43
616461--616512	25	2.1	25	82	7	61	23	3	9	63	1.41
616815--616850	2	18.0	2	100	0	72	50	0	0	50	1.00
618110--618457	156	2.2	155	89	4	520	34	16	14	35	1.89
618110--618506	156	2.5	155	85	6	482	33	15	14	36	1.88
618593--618664	31	2.4	31	79	11	78	50	1	2	45	1.25
622772--622809	20	1.9	20	84	10	51	50	13	21	15	1.78
632795--632856	24	2.6	25	85	7	76	40	0	3	56	1.15
639006--639031	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
655602--655659	25	2.3	25	85	5	73	27	31	6	34	1.83
655606--655671	25	2.6	25	75	18	64	33	28	6	31	1.82
661676--661708	15	2.2	15	100	0	66	33	33	18	15	1.92
661820--661888	24	2.8	26	83	12	85	31	24	5	37	1.79
661853--661888	12	3.0	12	91	0	63	36	25	5	33	1.79
662279--662383	45	2.3	45	80	6	124	28	17	19	35	1.94
668680--668748	24	2.8	26	83	12	85	31	24	5	37	1.79
668713--668748	12	3.0	12	91	0	63	36	25	5	33	1.79
669056--669216	64	2.5	64	86	6	218	26	19	21	32	1.97
669184--669234	19	2.7	19	100	0	102	27	25	17	29	1.98
670959--671017	31	1.9	31	92	0	100	52	15	10	22	1.72
674358--674415	21	2.7	21	86	5	80	43	8	17	31	1.79
680673--681287	310	2.0	306	96	3	1137	41	12	23	22	1.87
684374--684452	39	2.0	39	95	4	142	22	20	27	29	1.98
689635--689685	25	2.0	25	81	7	59	62	3	1	31	1.24
689877--689916	21	1.9	21	84	0	53	27	0	37	35	1.57
689893--689933	14	3.0	14	82	3	57	19	0	39	41	1.52
690512--690547	14	2.5	15	90	4	56	41	5	0	52	1.24
692581--692632	26	2.1	24	86	13	70	48	0	1	50	1.12
702253--702284	16	2.0	16	93	0	55	40	25	0	34	1.56
706378--706411	6	5.7	6	100	0	68	17	0	67	14	1.23
708710--708738	12	2.4	12	100	0	58	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)
709373--709418	13	3.5	13	76	5	56	69	0	10	19	1.17
709372--709434	27	2.2	28	94	5	110	66	1	9	22	1.29
713407--713452	21	2.2	21	88	0	65	39	13	10	36	1.79
713415--713457	21	2.0	21	95	0	77	41	13	11	32	1.81
714035--714106	29	2.5	29	81	4	83	37	12	31	18	1.88
716318--716353	3	12.0	3	100	0	72	0	33	0	66	0.92
720961--720993	16	2.1	16	94	0	57	63	12	9	15	1.51
723271--723301	12	2.6	12	100	0	62	41	16	6	35	1.74
729674--730403	366	2.0	364	98	1	1410	40	17	11	30	1.85
731659--731690	13	2.5	13	94	0	55	50	0	0	50	1.00
735407--735512	53	2.0	53	100	0	212	30	15	22	32	1.94
736286--736359	36	2.1	37	84	5	98	47	17	6	28	1.73
739418--739451	15	2.3	15	100	0	68	55	0	0	44	0.99
739432--739488	23	2.5	24	82	5	73	50	1	1	45	1.22
741483--741629	42	3.3	42	64	15	105	42	27	4	25	1.75
741449--741635	93	2.0	93	100	0	374	39	27	5	26	1.79
742618--742646	4	7.2	4	100	0	58	0	75	0	24	0.80
747169--747215	18	2.7	17	83	3	58	38	6	25	29	1.81
747583--748173	254	2.4	248	82	11	727	41	18	10	28	1.84
753060--753137	38	2.1	38	85	9	106	56	12	8	21	1.64
764868--764893	7	3.7	7	100	0	52	26	30	15	26	1.96
766395--766456	23	2.7	23	78	9	63	51	9	12	25	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
766530--766580	19	2.7	18	76	11	57	60	3	7	27	1.42
771271--771312	21	1.9	23	85	9	61	4	21	4	69	1.26
772073--772097	12	2.1	12	100	0	50	68	0	0	32	0.90
774724--774811	44	2.0	44	100	0	176	25	20	4	50	1.67
795549--795598	21	2.3	21	86	10	66	46	26	0	28	1.53
799068--799145	39	2.0	39	94	0	138	24	17	10	47	1.79
800766--800986	108	2.0	108	99	0	433	41	8	15	34	1.78
802182--802588	203	2.0	205	98	1	791	36	13	14	36	1.85
808546--808583	20	1.9	20	88	0	58	21	26	10	42	1.85
808935--808978	22	2.0	23	86	4	63	45	0	0	54	0.99

Tables:   1   2   3   4