genome.fa.s8161.2.7.7.80.10.50.1000.3.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: VEPZ01008161.1 Hibiscus syriacus cultivar Beakdansim tig00110730_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  673301

Tables:   1   2   3   4   

This is table  3  of  4  ( 371 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)
491509--491586	31	2.5	31	83	8	88	65	1	0	33	1.01
491523--491587	19	3.4	19	84	16	82	64	1	0	33	1.03
491511--491586	41	1.9	38	84	7	98	64	1	0	34	1.02
491620--491669	22	2.3	22	89	0	82	46	8	2	44	1.44
491589--491650	27	2.3	26	81	15	72	46	9	1	41	1.46
491692--491761	22	3.1	21	76	11	59	38	12	2	45	1.57
499415--499455	16	2.6	16	100	0	82	19	34	9	36	1.85
499816--499882	21	3.3	19	81	10	71	80	1	2	14	0.90
499815--499882	7	9.7	7	73	12	59	80	1	2	14	0.89
499830--499885	13	4.3	13	75	20	55	80	1	1	16	0.88
499833--499880	12	4.3	11	82	12	62	81	2	2	14	0.88
509338--509394	17	3.3	17	72	13	62	17	1	29	50	1.56
509335--509408	35	2.1	35	100	0	148	18	2	25	52	1.59
509346--509401	17	3.2	17	70	5	58	21	3	25	50	1.65
509353--509410	19	3.2	19	71	14	68	18	3	25	51	1.62
509335--509419	35	2.4	35	94	3	136	18	2	25	52	1.57
519779--519831	14	3.3	16	76	15	56	41	22	1	33	1.65
519946--520007	23	2.7	23	79	0	61	35	25	22	16	1.94
521565--521616	20	2.6	20	96	0	95	25	26	21	26	1.99
523085--523143	24	2.5	24	97	0	109	22	18	27	32	1.97
528744--528829	20	4.2	20	71	17	70	17	29	30	23	1.97
529525--529562	19	2.1	18	95	5	67	28	34	5	31	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
532600--532643	22	2.0	22	82	4	54	34	4	2	59	1.30
536205--536264	23	2.7	23	76	19	63	78	6	5	10	1.08
536344--536382	17	2.3	17	86	8	53	76	2	7	12	1.09
536527--536565	3	13.3	3	94	5	71	66	0	0	33	0.92
537077--537112	9	3.8	9	92	7	54	86	0	13	0	0.58
537787--537892	12	8.4	12	71	20	58	48	5	5	40	1.50
538656--538698	21	2.0	21	90	0	68	18	13	34	32	1.90
542570--542647	21	3.7	21	83	6	113	25	28	15	30	1.96
543042--543394	177	2.0	176	98	0	679	38	20	7	33	1.80
548537--548626	21	4.3	20	83	8	108	27	25	20	26	1.99
548537--548627	42	2.2	43	88	7	134	27	26	19	26	1.99
549037--549390	177	2.0	177	96	0	645	38	19	6	35	1.78
552131--552207	10	7.4	11	75	19	76	63	2	0	33	1.08
552130--552207	19	4.1	19	80	12	79	64	2	0	33	1.08
552131--552195	3	22.3	3	71	22	50	63	1	0	35	1.04
552214--552268	29	2.0	29	89	7	87	49	5	0	45	1.25
552241--552311	22	3.2	22	93	0	97	46	7	2	43	1.45
552359--552407	22	2.3	21	85	3	62	44	10	2	42	1.49
553764--553862	50	2.0	50	89	0	153	33	13	20	33	1.91
562352--562410	25	2.4	25	100	0	118	28	20	13	37	1.91
569553--569711	21	7.6	21	82	8	191	23	21	23	31	1.98
569567--569711	62	2.3	63	88	5	206	22	21	23	32	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
570426--570577	21	7.2	20	70	16	103	34	23	21	21	1.97
570426--570571	42	3.5	42	96	0	256	34	23	20	21	1.97
572855--572879	9	2.8	9	100	0	50	64	0	36	0	0.94
574061--574142	16	5.5	15	72	16	55	63	3	2	30	1.24
576271--576322	20	2.6	20	96	0	95	42	21	19	17	1.89
578972--579010	18	2.2	18	95	0	69	56	0	35	7	1.28
580499--580546	19	2.6	19	90	3	71	31	2	12	54	1.49
580994--581961	201	4.8	200	88	1	1272	37	14	15	33	1.88
582252--582280	15	1.9	15	100	0	58	27	37	6	27	1.82
583559--583610	18	2.9	18	97	0	95	32	40	11	15	1.83
586338--587048	200	3.6	200	86	3	911	38	14	15	30	1.88
587056--587219	87	1.9	88	92	1	276	33	14	10	41	1.80
587140--587184	23	2.0	23	86	0	63	42	20	4	33	1.72
588569--588618	23	2.0	26	85	11	70	68	10	8	14	1.40
592625--592676	21	2.5	21	84	3	70	40	19	23	17	1.91
592644--592731	40	2.2	40	81	6	97	34	22	19	23	1.97
592665--592734	20	3.5	20	94	0	122	30	24	18	27	1.98
592666--592779	20	5.4	21	81	13	74	28	26	18	26	1.98
592733--592783	20	2.5	20	87	0	75	27	27	19	25	1.99
593344--593489	19	8.1	19	72	17	114	12	23	20	43	1.86
593385--593440	14	3.6	14	74	21	58	10	25	25	39	1.87
593366--593464	33	3.0	33	93	1	162	11	24	23	41	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
595631--595697	21	3.2	21	68	6	55	23	34	20	20	1.97
595579--595697	42	2.8	42	78	2	114	23	35	17	23	1.95
597054--597089	14	2.6	14	95	0	63	30	0	25	44	1.54
597245--597344	33	3.0	33	88	4	148	19	21	19	41	1.91
597287--597345	19	3.4	19	73	22	74	13	22	18	45	1.84
599824--599877	24	2.2	24	87	6	74	40	20	14	24	1.90
600663--600714	21	2.5	21	87	3	70	38	17	23	21	1.93
600703--600763	23	2.9	20	77	13	59	31	22	19	26	1.98
600986--601073	20	4.4	20	74	5	88	37	22	21	18	1.94
601123--601167	19	2.4	19	100	0	90	15	20	15	48	1.80
601304--601340	14	2.6	14	86	0	56	48	21	0	29	1.50
602783--602842	21	2.9	20	73	11	59	20	13	45	21	1.85
603209--603275	20	3.5	20	79	4	75	37	22	23	16	1.94
603303--603383	19	4.5	19	76	14	91	14	18	19	46	1.83
603317--603383	33	2.1	32	97	2	125	13	17	20	47	1.81
603368--603405	20	2.0	20	89	5	60	18	26	23	31	1.97
603356--603422	20	3.4	19	74	10	55	14	20	23	40	1.90
603904--603948	18	2.5	18	88	0	72	13	15	44	26	1.83
605267--605325	20	3.0	20	87	0	73	42	22	18	16	1.89
605581--605633	22	2.5	20	80	11	70	24	9	41	24	1.84
605799--605953	20	7.7	20	83	5	159	24	18	23	33	1.97
605799--605952	61	2.5	61	81	5	186	24	18	24	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
605799--605956	81	1.9	82	85	1	219	24	17	23	34	1.96
605799--605974	81	2.2	81	82	3	201	23	19	23	34	1.97
605799--605994	81	2.4	79	77	9	196	23	19	22	34	1.96
606024--606064	21	2.0	21	85	0	55	34	29	17	19	1.94
606455--606527	37	2.0	38	86	5	105	43	2	2	50	1.30
606464--606538	37	2.1	36	84	2	96	48	2	1	48	1.24
607944--607986	17	2.5	17	85	7	52	60	0	0	39	0.97
610784--610843	23	2.6	22	84	10	68	40	1	5	53	1.33
611509--611540	2	16.0	2	100	0	64	50	0	0	50	1.00
615222--615324	3	34.7	3	74	5	84	64	0	0	33	1.07
615595--615711	58	2.0	58	93	0	198	29	18	15	36	1.92
615955--616000	23	2.0	23	83	12	58	15	26	6	52	1.67
615653--616276	123	5.0	123	93	1	1034	25	19	15	40	1.90
615653--616258	248	2.4	248	95	0	1079	25	19	15	40	1.90
617450--617484	18	1.9	18	100	0	70	57	5	5	31	1.46
617858--617911	11	4.6	11	78	13	54	1	14	0	83	0.73
617858--617911	18	3.0	18	82	17	76	1	14	0	83	0.73
625235--625266	15	2.1	15	94	0	55	46	9	18	25	1.79
630514--630554	16	2.6	16	96	0	73	26	26	19	26	1.99
630756--630849	3	31.7	3	74	6	75	60	1	1	37	1.11
637745--637784	19	2.0	20	86	13	57	45	2	5	47	1.38
642570--642620	10	5.1	10	80	0	57	33	29	0	37	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
642570--642620	20	2.5	20	90	0	75	33	29	0	37	1.58
642650--642704	23	2.3	26	84	12	73	32	0	1	65	1.03
642649--642715	23	3.0	23	74	18	61	34	0	1	64	1.03
643812--643850	19	2.0	20	85	14	55	35	0	10	53	1.35
644518--644557	21	1.9	21	94	0	71	22	40	25	12	1.89
650316--650398	21	3.9	21	78	7	87	21	36	25	16	1.94
653094--653133	21	1.9	21	94	0	71	22	40	25	12	1.89
654401--654437	18	2.1	18	89	0	56	32	18	32	16	1.93
654574--654607	14	2.4	14	90	0	50	17	2	8	70	1.25
654628--654701	34	2.2	34	81	11	82	21	2	13	62	1.44

Tables:   1   2   3   4