genome.fa.s8343.2.7.7.80.10.50.1000.3.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: VEPZ01008343.1 Hibiscus syriacus cultivar Beakdansim tig00111070_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  738381

Tables:   1   2   3   4   

This is table  3  of  4  ( 404 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)
346975--347251	113	2.5	110	90	6	424	43	8	2	45	1.47
347188--347225	12	3.2	12	88	3	60	42	5	0	52	1.24
347421--347509	18	4.8	18	73	16	65	43	7	0	48	1.32
350761--350822	17	3.4	17	73	16	61	48	11	0	40	1.39
351321--351369	21	2.3	21	85	3	71	53	16	0	30	1.43
351764--351902	65	2.1	65	89	0	206	26	15	32	25	1.96
351915--351974	29	2.0	30	93	3	104	18	38	28	15	1.91
351993--352045	16	3.1	16	83	8	52	20	47	11	20	1.81
352014--352060	19	2.4	20	96	3	87	19	44	12	23	1.85
352105--352184	29	2.8	29	98	0	151	7	27	36	28	1.84
352538--352974	218	2.0	218	96	0	811	12	24	22	41	1.87
369577--369696	61	2.0	61	84	0	159	18	31	26	23	1.97
369844--369869	13	2.0	13	100	0	52	23	30	0	46	1.53
370410--370501	21	4.4	21	77	8	80	11	15	40	32	1.84
370449--370498	21	2.4	21	96	0	91	4	14	46	36	1.63
372525--372624	50	2.0	50	82	7	123	28	28	31	13	1.93
373219--373314	13	8.0	13	69	23	50	61	0	1	37	1.03
373215--373310	16	5.6	16	67	13	57	60	0	1	38	1.04
373222--373310	35	2.5	36	76	10	103	61	0	1	37	1.03
377703--377744	21	2.0	22	85	4	59	61	0	2	35	1.09
379383--379423	20	1.9	21	85	14	57	48	31	12	7	1.68
384619--384738	35	3.3	36	88	5	172	44	20	4	31	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
384670--384730	21	3.2	21	65	29	64	42	21	4	31	1.74
384621--384765	35	4.1	36	82	11	133	42	19	5	33	1.74
392934--392963	14	2.1	14	93	0	51	20	16	23	40	1.91
397377--397452	40	1.9	40	94	0	134	31	22	5	40	1.76
397582--397621	20	2.1	19	86	9	55	42	5	2	50	1.37
397609--397638	14	2.2	14	94	5	53	43	0	3	53	1.17
398319--398355	2	19.0	2	94	5	67	48	0	0	51	1.00
398465--398517	3	17.3	3	92	3	88	30	1	0	67	1.01
405081--405118	18	2.2	17	90	4	58	71	0	0	28	0.87
406002--406028	2	13.5	2	100	0	54	51	0	0	48	1.00
412175--412278	41	2.5	41	90	0	163	28	15	20	35	1.93
416726--416832	41	2.6	41	86	5	162	27	16	21	34	1.95
417495--417651	78	2.0	78	94	0	278	33	31	16	17	1.93
419394--419433	20	2.0	20	90	0	62	35	27	10	27	1.89
419988--420085	20	4.7	21	83	6	103	13	20	39	26	1.89
425022--425186	85	1.9	85	84	4	217	28	16	22	32	1.96
425158--425220	13	5.0	13	78	7	58	31	14	23	30	1.94
425878--425952	3	25.7	3	84	10	102	65	2	30	1	1.15
440277--440302	4	6.5	4	100	0	52	76	0	0	23	0.78
440330--440417	29	2.8	31	81	8	81	48	3	1	46	1.26
440511--440545	3	11.7	3	100	0	70	68	0	0	31	0.90
440762--440815	2	27.0	2	100	0	108	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)
441017--441069	2	27.0	2	96	3	99	50	0	0	49	1.00
442400--442531	23	5.9	23	81	11	143	28	25	20	25	1.99
442400--442531	44	3.0	44	82	10	160	28	25	20	25	1.99
442504--442553	21	2.4	21	86	0	64	34	30	14	22	1.93
445010--445058	13	3.7	13	80	2	53	32	30	12	24	1.92
446894--447678	390	2.0	390	89	2	1184	28	12	20	38	1.89
452875--452910	16	2.2	16	100	0	72	30	22	8	38	1.83
459904--460101	41	4.8	41	92	2	326	21	20	22	35	1.96
459940--460091	20	7.4	20	67	7	99	18	21	23	36	1.95
463117--463164	20	2.4	20	92	0	78	45	10	14	29	1.78
464203--464240	10	3.8	10	82	10	51	65	0	0	34	0.93
464200--464293	47	2.0	48	81	10	113	57	3	2	37	1.27
468128--468153	2	13.0	2	100	0	52	50	0	0	50	1.00
474050--474159	56	1.9	58	81	3	134	40	3	0	55	1.17
474106--474143	17	2.3	16	90	4	58	42	2	0	55	1.14
487289--487313	8	3.1	8	100	0	50	24	0	0	76	0.80
489935--489984	23	2.2	23	85	7	66	32	24	10	34	1.88
492183--492237	21	2.6	21	82	8	67	78	9	0	12	0.97
494363--494426	23	2.8	23	80	0	65	48	7	4	39	1.53
495875--495914	5	8.0	5	88	0	62	0	0	55	45	0.99
495874--495914	15	2.7	15	100	0	82	0	0	53	46	1.00
497205--497256	20	2.6	21	84	6	63	28	25	13	32	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
497880--497922	2	21.5	2	100	0	86	51	0	0	48	1.00
499173--499213	12	3.6	12	80	6	50	36	21	9	31	1.86
504558--504597	11	3.5	11	86	6	53	87	2	7	2	0.71
506182--506512	183	1.8	179	83	6	443	39	9	11	38	1.74
507528--507586	7	8.6	7	80	9	50	10	8	0	81	0.88
507528--507582	21	2.6	21	91	0	83	10	9	0	80	0.92
507526--507586	28	2.2	27	85	5	86	9	8	0	81	0.86
513655--513731	23	3.5	22	85	5	93	18	22	35	24	1.96
517549--517588	21	1.9	21	85	10	55	35	10	2	52	1.48
521574--521617	20	2.2	20	100	0	88	27	9	29	34	1.87
524848--524886	20	1.9	21	84	5	53	46	5	10	38	1.60
535854--535910	3	18.3	3	80	3	60	28	1	5	64	1.25
541768--541848	18	4.3	18	78	17	83	19	22	27	30	1.98
541799--541840	22	1.9	22	95	0	75	23	16	23	35	1.95
543689--543737	20	2.5	20	79	0	62	26	22	12	38	1.89
545203--545268	33	2.0	33	96	0	123	46	15	10	27	1.78
553549--553908	188	1.9	188	87	0	522	50	17	9	22	1.74
555257--555326	33	2.2	33	86	2	97	32	11	14	41	1.81
555990--556091	28	3.5	30	76	11	79	34	15	12	37	1.86
556736--556776	20	2.0	22	90	9	68	60	0	0	39	0.96
560133--560181	19	2.7	17	84	9	53	22	22	26	28	1.99
562932--563023	44	2.1	43	86	7	125	25	20	25	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
568812--568919	45	2.4	46	87	4	148	31	20	19	28	1.97
568860--568985	65	2.0	63	84	10	166	26	19	22	31	1.97
570987--571056	32	2.2	32	92	0	113	44	7	14	34	1.72
578026--578064	20	2.0	19	90	5	60	33	10	33	23	1.88
578531--578560	15	2.0	15	100	0	60	20	0	20	60	1.37
583697--583790	32	3.0	32	84	6	120	34	22	19	24	1.97
593017--593058	2	21.0	2	100	0	84	50	0	0	50	1.00
597674--597815	55	2.6	55	90	0	221	28	23	19	28	1.98
602398--602568	80	2.1	80	82	5	211	42	9	5	42	1.59
602586--602634	20	2.4	20	80	12	55	61	4	0	34	1.15
603059--603103	21	2.1	21	83	0	54	24	22	17	35	1.95
603093--603145	20	2.7	20	93	0	97	39	20	18	20	1.92
603132--603198	20	3.3	20	91	0	107	29	26	19	23	1.98
603112--603206	40	2.3	41	76	16	99	33	24	17	24	1.96
604040--604093	24	2.2	24	93	0	90	20	18	20	40	1.91
606509--606601	20	4.7	20	89	2	143	34	24	22	18	1.96
606573--606668	33	2.8	33	87	3	138	43	21	22	11	1.85
606683--606779	34	2.8	33	89	4	131	12	22	20	44	1.85
606877--606913	14	2.6	14	86	0	56	48	21	0	29	1.50
608296--608406	42	2.6	42	75	9	111	23	18	36	21	1.95
608887--608998	20	5.6	20	89	4	163	37	21	18	22	1.94
609024--609162	20	7.6	20	73	21	108	17	20	21	41	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
609005--609159	34	4.4	34	75	10	141	16	20	20	42	1.89
611058--611167	20	5.6	20	86	1	78	43	22	16	17	1.87
611505--611580	22	3.5	22	76	7	73	22	15	36	25	1.93
611768--611840	20	3.7	20	98	0	137	19	20	21	38	1.94
611837--611882	21	2.2	21	92	0	74	39	17	26	17	1.91
624800--624830	16	1.9	16	93	0	53	77	3	0	19	0.90
635652--635976	37	8.7	37	74	9	234	45	6	4	43	1.49
635660--635759	35	2.8	36	79	11	105	43	6	5	46	1.50
635746--635806	29	2.0	31	84	6	81	47	1	3	47	1.28
635617--635976	75	4.9	72	74	9	278	46	6	4	43	1.49

Tables:   1   2   3   4