genome.fa.s8639.2.7.7.80.10.50.1000.4.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: VEPZ01008639.1 Hibiscus syriacus cultivar Beakdansim tig00111614_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1076872

Tables:   1   2   3   4   5   6   

This is table  4  of  6  ( 690 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)
566733--566777	21	2.1	21	91	0	72	51	0	11	37	1.38
574868--575220	74	4.7	74	95	0	607	20	20	19	39	1.93
576415--576459	23	2.0	23	95	0	81	37	17	11	33	1.85
577122--577177	18	3.3	17	79	16	55	37	0	7	55	1.27
578108--578132	8	3.1	8	100	0	50	88	0	12	0	0.53
579016--579151	70	1.9	70	82	2	166	41	16	14	27	1.88
579119--579175	23	2.5	23	80	5	62	49	15	10	24	1.76
581712--582014	154	2.0	146	88	6	446	46	17	15	20	1.83
583441--583498	21	3.1	21	68	31	67	43	18	0	37	1.51
583419--583498	35	2.3	35	93	0	133	43	21	0	35	1.53
583671--584105	148	3.0	148	93	0	712	36	6	9	47	1.61
584607--584686	35	2.3	35	82	0	97	35	1	18	45	1.58
585714--585761	23	2.1	23	84	7	62	37	10	18	33	1.85
585923--585969	24	2.0	24	86	0	67	44	12	17	25	1.84
589234--590040	201	4.0	202	80	5	882	31	14	15	38	1.87
590840--590886	23	2.0	23	84	8	60	25	19	2	53	1.56
591074--591132	23	2.6	23	86	0	64	32	25	20	22	1.98
591158--591375	103	2.1	103	93	0	373	37	23	12	26	1.90
592182--592237	19	3.0	19	89	10	89	25	26	16	32	1.96
592183--592247	18	3.6	17	93	6	94	23	26	18	32	1.97
594627--595275	182	3.6	180	84	3	809	27	17	13	42	1.86
597101--597423	161	2.0	162	99	0	639	40	11	6	41	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
600427--600498	24	3.0	24	77	0	72	52	16	9	20	1.72
604744--604780	19	2.0	19	89	5	58	35	10	29	24	1.89
605958--606000	15	2.9	15	92	0	68	6	37	18	37	1.78
608795--608833	3	13.0	3	100	0	78	66	0	0	33	0.92
609061--609472	112	3.7	112	91	1	628	26	18	15	39	1.90
609061--609477	225	1.9	224	89	1	656	26	19	14	39	1.90
609414--609515	40	2.5	40	93	1	177	18	22	8	50	1.75
609301--609625	153	2.1	153	98	0	623	24	20	13	41	1.88
609454--609736	113	2.5	113	97	0	530	26	19	13	40	1.89
609187--609736	266	2.1	265	97	0	1028	26	19	14	40	1.90
610461--610905	83	5.0	88	89	6	581	35	20	14	29	1.92
611914--611951	16	2.4	16	82	8	51	57	7	5	28	1.49
612271--612327	16	3.6	16	77	15	64	0	15	0	84	0.63
612278--612320	11	3.6	11	87	12	59	0	13	0	86	0.58
612273--612330	13	4.5	13	77	18	68	0	17	0	82	0.66
612273--612330	26	2.3	26	91	8	93	0	17	0	82	0.66
616816--616847	15	2.1	15	94	0	55	46	9	18	25	1.79
620128--620186	30	1.9	32	82	6	77	61	1	6	30	1.32
622317--622376	3	20.0	3	96	0	102	63	0	0	36	0.95
624139--624163	2	12.5	2	100	0	50	48	0	0	52	1.00
624229--624515	126	2.3	126	95	0	511	26	25	23	24	2.00
624857--624899	22	2.0	22	85	0	59	44	4	4	46	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
624871--624931	32	1.9	32	90	6	97	39	4	4	50	1.45
630907--630952	23	2.0	23	86	0	65	30	26	21	21	1.99
630930--631234	149	2.0	149	97	0	574	37	20	14	28	1.92
636108--636153	23	2.0	23	91	0	74	28	26	23	21	1.99
636131--636435	149	2.0	149	99	0	601	36	20	15	27	1.93
638513--638580	29	2.3	29	78	14	77	35	4	17	42	1.69
639891--639929	19	2.1	19	86	13	55	30	5	5	58	1.41
640763--640810	23	2.1	23	84	7	62	58	14	2	25	1.48
646316--646363	23	2.1	23	84	7	62	58	14	2	25	1.48
652872--652939	29	2.3	29	80	14	86	36	2	17	42	1.65
654217--654255	19	2.1	19	86	13	55	30	5	5	58	1.41
657406--657563	21	7.8	20	72	7	86	38	25	17	18	1.92
657530--657723	20	9.6	20	80	5	212	36	25	19	19	1.95
657530--657723	60	3.2	59	83	3	244	36	25	19	19	1.95
658105--658175	33	2.2	33	92	0	115	11	25	15	47	1.78
658255--658358	21	5.4	20	71	15	87	45	19	25	10	1.82
658253--658331	21	3.8	21	79	12	92	45	16	26	11	1.81
658254--658331	41	1.9	41	94	0	138	44	16	26	11	1.82
658307--658376	33	2.1	33	94	0	122	47	21	24	7	1.76
658313--658387	33	2.3	33	90	0	114	46	25	21	6	1.75
658329--658387	19	3.4	18	71	22	54	45	27	18	8	1.78
658383--658480	19	5.7	19	70	22	81	10	24	22	42	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
658405--658494	14	5.7	14	74	23	81	8	25	23	42	1.83
658388--658502	33	3.5	33	95	0	212	9	24	20	45	1.81
660194--660574	93	4.1	93	98	0	726	22	12	18	46	1.83
660618--660746	19	7.3	19	73	17	116	45	27	17	9	1.78
660654--660746	33	2.8	32	90	4	141	46	26	18	8	1.78
660618--660746	52	2.5	52	74	12	138	45	27	17	9	1.78
660742--660860	19	6.8	19	78	18	132	10	20	21	47	1.80
660764--660820	14	3.7	14	79	20	69	10	21	21	47	1.80
660747--660839	33	2.8	33	98	0	177	11	20	19	48	1.80
660811--660876	19	3.4	19	83	6	80	12	16	25	45	1.82
662803--662838	14	2.6	14	95	0	63	33	0	22	44	1.53
662945--663042	19	5.4	19	84	13	143	45	17	22	14	1.84
662945--663061	53	2.2	53	98	1	227	44	17	23	13	1.85
665379--665403	12	2.1	12	100	0	50	0	28	0	72	0.86
665577--665623	24	2.0	24	87	8	69	38	21	14	25	1.92
666306--666555	20	12.5	20	86	1	268	20	17	24	37	1.93
666542--666624	21	4.0	21	73	6	78	25	16	24	33	1.96
666522--666620	42	2.4	43	77	11	100	21	18	23	37	1.94
671476--671540	21	3.3	21	71	20	77	44	6	9	40	1.61
671470--671544	37	2.0	37	100	0	150	42	8	8	41	1.63
680400--680445	21	2.2	21	77	14	51	56	13	0	30	1.37
690432--690573	51	2.8	51	92	0	230	32	33	8	26	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
693442--693499	23	2.5	23	100	0	116	32	15	18	32	1.93
694113--694177	30	2.2	30	82	0	76	35	13	30	20	1.91
699510--699566	21	2.7	21	81	5	71	33	24	19	22	1.97
702291--702574	117	2.4	117	95	0	523	32	34	16	17	1.92
703529--703592	29	2.2	29	83	5	76	51	14	3	31	1.57
703632--703711	29	2.8	29	82	0	97	47	20	6	26	1.73
715224--715269	17	2.7	17	100	0	92	21	19	17	41	1.90
716765--716863	10	8.3	12	69	23	59	44	0	1	54	1.06
726077--726136	20	2.9	19	80	14	57	25	30	26	18	1.98
730556--730594	20	2.0	20	94	0	69	51	17	12	17	1.76
730601--730663	20	3.2	20	90	2	101	12	19	22	46	1.83
730604--730674	20	3.5	20	84	0	79	15	16	18	49	1.80
731930--732023	41	2.3	41	100	0	188	47	13	10	27	1.76
732802--732920	21	5.7	21	88	0	175	20	35	19	25	1.96
732802--732920	63	1.9	63	92	0	202	20	35	19	25	1.96
734587--734622	18	2.0	18	94	0	63	16	2	25	55	1.55
736896--736942	24	2.0	24	91	0	76	31	12	23	31	1.92
736903--736951	24	2.0	24	84	0	62	36	16	18	28	1.92
737969--738012	20	2.2	20	83	0	52	40	11	25	22	1.87
737985--738112	40	3.2	40	73	8	127	32	13	25	28	1.93
738009--738071	20	3.2	19	78	17	65	30	15	25	28	1.96
737985--738152	80	2.1	79	80	8	189	30	13	27	28	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
738097--738138	20	2.1	20	95	0	75	33	9	30	26	1.88
738891--738989	45	2.3	43	83	13	123	64	7	0	28	1.19
741794--741842	23	2.1	23	88	7	73	24	26	18	30	1.98
741818--741897	36	2.2	36	100	0	160	21	23	18	36	1.95
743619--743926	137	2.2	136	83	7	358	43	11	12	31	1.79
744466--744667	104	2.0	103	84	6	266	37	14	21	26	1.92
749904--749936	15	2.2	15	94	0	57	30	33	21	15	1.94
750424--750600	64	2.8	64	83	5	214	25	20	22	31	1.98
750487--750648	64	2.5	63	86	5	202	25	22	20	30	1.98
768929--768976	15	3.2	15	87	0	69	33	31	18	16	1.94

Tables:   1   2   3   4   5   6