genome.fa.s8662.2.7.7.80.10.50.1000.3.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: VEPZ01008662.1 Hibiscus syriacus cultivar Beakdansim tig00111662_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1703488

Tables:   1   2   3   4   5   6   7   8   

This is table  3  of  8  ( 848 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)
529421--529459	15	2.6	15	91	0	60	48	7	2	41	1.45
536608--536678	33	2.2	33	87	2	99	43	15	9	30	1.79
536674--536715	21	2.0	21	95	0	75	52	2	14	30	1.54
540513--540578	30	2.2	30	88	0	96	34	24	30	10	1.89
540789--540859	24	2.9	24	91	2	97	39	14	18	28	1.89
540804--540859	24	2.3	24	100	0	112	37	16	17	28	1.91
556528--556576	25	2.0	25	84	4	64	55	20	12	12	1.68
559556--559595	4	10.0	4	100	0	80	75	0	0	25	0.81
561321--561376	2	29.5	2	77	22	59	46	1	1	50	1.22
561470--561513	21	2.1	21	82	0	52	40	6	0	52	1.28
562091--562201	39	2.8	39	77	17	131	43	0	19	36	1.52
567386--567428	22	2.0	22	86	9	61	53	9	9	27	1.63
569759--569795	19	1.9	19	88	0	56	56	5	8	29	1.51
572082--572131	26	2.0	25	84	11	66	24	2	14	60	1.45
573106--573170	24	2.7	24	90	0	103	10	12	21	55	1.67
573106--573159	14	4.1	14	72	18	53	11	11	22	55	1.66
573877--573934	16	3.6	16	88	0	89	10	12	22	55	1.66
574214--574290	28	2.8	28	75	14	88	57	3	5	33	1.39
576073--576116	14	2.9	15	75	18	54	4	13	29	52	1.60
576065--576128	18	3.6	18	73	23	62	4	12	29	53	1.59
579757--579781	2	12.5	2	100	0	50	52	0	0	48	1.00
585281--585315	12	2.8	12	91	4	52	71	0	0	28	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
585445--585513	25	2.7	26	80	8	70	42	10	11	36	1.75
585615--585670	25	2.2	25	81	6	60	37	12	12	37	1.81
597313--597338	12	2.2	12	100	0	52	26	30	15	26	1.96
602595--602683	32	2.9	31	81	3	108	34	20	17	26	1.95
606380--606412	16	2.1	16	88	5	50	45	6	3	45	1.43
610184--610301	59	2.0	59	100	0	236	37	15	16	30	1.90
612151--612192	21	2.0	21	100	0	84	23	19	14	42	1.87
616788--616845	21	2.7	21	86	5	62	29	15	8	46	1.75
616799--616846	21	2.3	21	92	0	78	27	16	12	43	1.84
619840--619908	3	22.7	3	82	8	77	65	0	2	31	1.08
620099--620407	127	2.4	130	84	4	383	26	17	31	24	1.97
620634--620726	31	2.8	32	81	15	109	36	12	17	33	1.88
620796--620874	39	2.0	39	80	4	88	34	15	8	41	1.78
620931--621024	36	2.6	36	80	9	111	40	13	14	30	1.86
621714--621823	8	13.8	8	82	0	130	27	16	23	32	1.96
621714--621823	24	4.6	24	88	0	148	27	16	23	32	1.96
621834--621889	2	28.5	2	96	3	105	0	0	50	50	1.00
623392--623421	13	2.4	13	94	5	53	0	10	6	83	0.81
623376--623417	21	2.0	22	86	13	61	0	14	9	76	1.02
623363--623417	21	2.7	20	81	13	58	0	14	9	76	1.02
623846--623929	41	2.0	41	100	0	168	23	14	28	33	1.94
629843--630573	4	186.8	4	88	5	1039	27	0	22	49	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
631698--631722	5	5.0	5	100	0	50	40	0	0	60	0.97
633789--633858	30	2.3	30	92	0	113	34	12	22	30	1.92
633881--633957	31	2.5	32	76	17	81	38	11	18	31	1.86
633934--634128	63	3.1	63	73	18	188	35	14	20	29	1.92
634073--634405	39	9.0	37	85	7	353	37	15	19	27	1.92
645371--645400	15	2.1	15	93	6	53	23	33	23	20	1.97
654704--655138	91	4.9	88	86	6	557	37	16	23	22	1.93
655028--655143	40	2.9	39	74	2	133	37	13	21	26	1.91
654995--655143	79	1.9	79	90	2	237	40	14	22	23	1.90
656264--656319	24	2.3	24	100	0	112	41	5	39	14	1.68
656784--656851	22	3.0	22	75	14	68	23	2	4	69	1.21
657935--657973	17	2.4	17	95	4	71	43	0	5	51	1.24
660146--660174	15	2.0	15	93	6	51	31	34	13	20	1.92
669376--669826	91	5.1	90	87	7	631	36	17	22	23	1.95
669662--669807	39	3.7	39	75	10	145	39	14	23	23	1.91
669663--669812	79	1.9	79	91	2	248	38	14	23	24	1.92
671351--671418	22	3.0	22	75	14	68	23	2	4	69	1.21
672365--672748	189	2.0	193	96	3	722	31	22	13	32	1.92
673312--673677	135	2.7	135	84	0	464	24	16	31	26	1.96
674196--674304	36	3.1	34	78	15	114	39	10	15	34	1.81
674308--674517	107	2.0	107	83	7	266	41	11	14	31	1.82
674429--674734	155	2.0	157	80	6	345	40	10	12	35	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
675048--675170	4	30.8	4	97	0	219	21	0	26	51	1.48
675152--675903	6	126.5	6	82	2	694	0	10	49	39	1.41
675152--675903	8	94.9	8	89	2	694	0	10	49	39	1.41
677230--677283	19	2.9	19	78	13	58	0	11	9	79	0.93
681930--681962	11	3.1	11	86	8	50	69	3	0	27	1.03
682977--683012	16	2.2	16	95	0	63	22	44	5	27	1.75
683749--683800	3	17.7	3	88	4	79	67	0	1	30	1.02
685490--685769	142	2.0	141	89	3	429	42	11	9	36	1.73
686964--686996	15	2.2	16	89	10	52	45	0	0	54	0.99
687740--687917	89	2.0	89	100	0	356	24	10	12	52	1.69
689134--689194	31	2.0	31	90	0	95	29	16	22	31	1.96
690130--690158	2	15.0	2	92	7	51	51	0	0	48	1.00
696853--696933	42	1.9	42	84	0	108	50	2	1	45	1.22
697169--697239	28	2.4	28	81	13	81	56	2	0	40	1.14
699308--699343	16	2.2	16	95	0	63	44	13	0	41	1.44
700713--700753	10	4.1	10	90	0	64	31	29	0	39	1.57
700795--700835	18	2.3	18	91	4	66	29	4	2	63	1.28
702512--702569	18	3.2	18	82	0	80	22	25	22	29	1.99
706048--706088	18	2.3	18	95	0	73	29	21	17	31	1.96
709015--709491	167	2.8	167	82	8	536	49	17	12	20	1.79
711039--711090	21	2.5	21	77	0	59	46	11	7	34	1.69
711709--711803	49	2.0	48	85	2	127	30	28	22	18	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
715594--715649	2	28.5	2	96	3	105	48	0	0	51	1.00
716650--716856	104	2.0	103	99	0	405	19	33	16	30	1.94
724845--724898	20	2.6	21	88	5	74	35	27	14	22	1.93
724950--725002	20	2.7	20	77	13	56	33	18	22	24	1.97
728700--728751	21	2.4	21	84	9	61	40	21	21	17	1.91
728738--728795	23	2.5	23	91	0	89	34	24	24	17	1.96
728781--728811	16	1.9	16	93	0	53	29	35	29	6	1.82
734468--734492	13	1.9	13	100	0	50	24	0	20	56	1.43
735831--735930	20	5.1	21	68	21	58	41	1	11	47	1.46
735941--735969	2	14.5	2	100	0	58	51	0	0	48	1.00
735980--736042	32	1.9	33	87	9	94	52	0	6	41	1.27
752309--752375	18	3.8	17	82	4	80	29	29	22	17	1.97
753018--753069	19	2.7	19	96	0	95	23	30	15	30	1.95
754263--754337	37	2.0	37	100	0	150	26	18	16	38	1.91
757435--757491	21	2.8	20	81	7	71	33	22	17	26	1.96
757440--757492	19	2.7	20	82	5	63	30	22	18	28	1.98
761256--761316	21	3.0	21	97	2	115	24	24	3	47	1.67
768778--768823	22	2.1	22	95	0	83	52	15	8	23	1.70
773510--773553	18	2.3	19	84	11	54	45	0	0	54	0.99
775513--775739	115	2.0	115	96	0	418	29	16	17	36	1.91
776312--776355	17	2.6	17	96	0	79	20	15	6	56	1.62
779359--779988	44	14.3	44	97	0	1134	32	22	6	38	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
780064--780631	59	9.6	58	78	7	379	29	22	10	36	1.88
780129--780323	60	3.3	61	88	4	265	28	22	11	37	1.89
780064--780640	118	4.9	117	76	10	471	29	22	11	36	1.89
780081--780631	177	3.1	173	75	10	490	29	22	11	36	1.89
780960--781010	20	2.6	19	85	11	68	27	19	21	31	1.97
781044--781095	19	2.7	19	100	0	104	21	28	23	26	1.99
789137--789185	16	3.1	16	90	0	80	32	2	22	42	1.65
792133--792214	24	3.6	24	71	17	59	29	6	2	62	1.32
795482--795513	15	2.1	15	94	0	55	25	18	9	46	1.79
799268--799299	9	3.6	9	91	0	55	21	21	0	56	1.43

Tables:   1   2   3   4   5   6   7   8