genome.fa.s907.2.7.7.80.10.50.1000.3.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: VEPZ01000907.1 Hibiscus syriacus cultivar Beakdansim tig00001799_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  656280

Tables:   1   2   3   4   

This is table  3  of  4  ( 425 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)
367936--368002	22	3.0	22	84	0	89	23	22	25	28	1.99
369729--369833	36	2.9	35	87	2	129	39	12	16	32	1.85
369729--369827	35	2.8	36	89	1	137	37	12	17	33	1.86
370147--370181	16	2.2	16	89	0	52	25	0	25	48	1.51
373624--373674	14	3.7	14	81	2	59	64	5	11	17	1.45
375104--375146	22	1.9	23	85	4	61	51	2	2	44	1.27
375859--375884	2	13.0	2	100	0	52	50	0	0	50	1.00
379345--379409	3	21.0	3	79	3	58	43	1	0	55	1.09
379347--379407	12	4.9	12	82	6	77	44	1	0	54	1.10
379353--379429	29	2.7	29	82	11	88	50	1	0	48	1.09
392180--392268	8	10.4	9	71	20	59	79	0	20	0	0.73
392180--392272	14	7.0	13	77	18	77	79	0	20	0	0.73
392183--392262	24	3.4	23	78	16	85	80	0	20	0	0.72
392182--392272	6	15.5	6	74	19	77	80	0	19	0	0.72
392185--392271	21	4.2	20	82	16	106	81	0	18	0	0.69
392197--392271	7	10.7	7	81	16	93	82	0	17	0	0.67
392185--392271	35	2.4	38	75	22	66	81	0	18	0	0.69
394528--395410	215	3.9	226	87	5	1214	37	14	18	29	1.91
394530--395410	113	7.8	113	88	3	1136	37	14	18	29	1.91
399310--399334	2	12.5	2	100	0	50	48	0	0	52	1.00
403453--403769	156	2.0	156	98	1	618	31	14	15	38	1.87
416704--416734	2	15.5	2	100	0	62	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
419024--419061	20	1.9	20	94	0	67	42	10	0	47	1.38
419427--419471	2	22.0	2	95	4	81	48	0	2	48	1.13
419578--419604	11	2.5	11	100	0	54	44	0	0	55	0.99
419828--419865	18	2.1	18	95	0	67	39	26	2	31	1.70
419936--419966	16	1.9	16	93	0	53	35	12	12	38	1.82
421484--421612	42	3.1	43	77	4	138	28	14	17	39	1.89
425516--425601	30	2.9	30	87	3	120	19	25	6	47	1.74
429271--429359	42	2.1	41	87	2	124	28	16	17	37	1.92
429245--429507	43	6.2	43	80	3	248	25	22	17	34	1.95
446630--447018	196	2.0	192	94	5	676	27	15	15	41	1.88
447300--447364	19	3.3	19	76	6	67	50	1	1	46	1.20
447478--447520	21	2.0	21	100	0	86	30	18	32	18	1.95
450379--450406	6	4.7	6	100	0	56	0	0	28	71	0.86
455743--455807	29	2.2	29	97	0	121	56	12	20	10	1.65
459764--459810	17	2.8	17	90	3	69	27	10	4	57	1.51
462086--462401	41	7.7	41	71	5	217	32	19	12	34	1.90
462105--462401	82	3.6	81	88	1	423	33	19	12	34	1.89
462107--462415	164	1.9	164	88	0	474	33	20	11	34	1.88
464156--464238	42	2.0	43	82	2	105	33	12	6	48	1.65
465097--465140	19	2.4	19	92	3	72	75	0	6	18	1.02
465834--465942	19	5.8	19	69	16	59	56	14	0	27	1.44
465781--465973	74	2.6	74	90	4	293	58	12	1	27	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
466105--467177	543	2.0	535	91	3	1744	43	17	13	26	1.85
468352--468464	5	21.8	5	74	10	93	71	1	4	22	1.13
468357--468477	39	3.1	39	78	5	136	71	2	5	20	1.19
474128--474171	19	2.4	19	92	3	72	72	0	4	22	1.02
474126--474171	23	2.0	23	83	8	58	71	0	4	23	1.03
474837--474863	12	2.2	12	100	0	54	51	0	0	48	1.00
474781--474996	74	2.9	72	84	6	254	55	12	2	30	1.49
474785--474996	73	2.8	73	85	5	248	55	11	2	30	1.48
485509--485537	2	14.5	2	100	0	58	48	0	0	51	1.00
487597--487636	20	1.9	22	85	10	57	22	17	12	47	1.81
487597--487636	21	2.0	20	85	5	53	22	17	12	47	1.81
491098--491155	19	3.3	19	72	18	61	25	0	5	68	1.10
491129--491199	37	1.9	37	85	5	99	30	0	1	67	0.99
491313--491372	21	2.8	20	75	9	57	30	21	21	26	1.99
491837--491902	19	3.5	19	82	0	87	27	10	33	28	1.90
498490--498527	19	2.1	19	90	5	60	76	2	0	21	0.91
501871--501930	29	2.0	29	81	15	70	70	3	11	15	1.30
509890--509923	16	2.1	17	88	5	52	67	8	2	20	1.31
509955--510017	19	3.3	19	97	0	117	31	6	15	46	1.71
513218--513554	169	2.0	167	95	3	606	31	15	19	33	1.93
513605--513691	45	2.0	44	86	4	122	29	13	16	40	1.87
513605--513705	43	2.3	45	82	3	125	30	11	16	40	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
513854--513912	21	2.8	21	73	0	55	23	47	13	15	1.81
513963--514016	2	27.5	2	96	3	101	48	0	0	51	1.00
515955--516002	17	2.5	20	74	19	57	20	16	12	50	1.78
517183--517308	41	3.0	41	81	3	144	23	22	19	34	1.96
520853--520885	15	2.1	16	88	5	50	63	12	3	21	1.41
521899--521931	16	2.0	17	88	5	50	63	0	0	36	0.95
522131--522182	23	2.2	22	77	16	52	57	3	3	34	1.35
526285--526323	17	2.3	17	83	12	53	82	0	2	15	0.79
526486--526534	2	25.0	2	95	4	91	51	0	0	48	1.00
528882--528960	29	2.7	28	79	13	79	74	1	8	15	1.12
528902--528979	9	8.6	9	72	17	54	78	3	5	12	1.06
528908--528953	10	4.7	10	81	13	51	76	0	8	15	1.02
529002--529050	23	2.1	23	82	14	57	63	0	6	30	1.19
529046--529100	25	2.2	24	78	9	58	65	7	7	20	1.41
530412--530449	5	7.6	5	85	8	51	57	0	0	42	0.98
530409--530449	19	2.1	20	86	4	57	56	0	0	43	0.99
530512--530580	31	2.4	29	79	13	72	10	14	7	68	1.39
531062--531099	20	1.9	20	94	0	67	7	36	10	44	1.68
533173--533221	24	2.0	24	100	0	98	24	12	16	46	1.81
535399--535441	21	2.1	20	83	12	52	48	6	16	27	1.71
537373--537425	19	2.7	19	80	13	54	75	5	0	18	0.99
537542--537572	2	16.0	2	93	6	55	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
538467--538561	16	5.4	17	76	16	79	61	0	2	36	1.08
538486--538531	13	3.5	13	82	8	58	56	0	0	43	0.99
538635--538673	19	2.0	18	85	14	51	53	0	0	46	1.00
539083--539130	15	3.3	14	82	8	60	43	0	0	56	0.99
539160--539270	15	8.0	13	67	23	50	38	1	0	59	1.08
539208--539273	22	3.2	21	73	23	59	34	0	0	65	0.93
539209--539272	33	2.0	32	84	9	85	35	0	0	64	0.94
539989--540105	62	1.9	62	100	0	234	14	36	20	28	1.92
540576--540619	21	2.1	21	91	0	70	29	0	15	54	1.42
540596--540649	28	1.9	28	96	0	99	29	0	12	57	1.36
540625--540732	50	2.3	49	80	12	129	40	0	10	48	1.43
541109--541269	83	1.9	84	92	3	272	39	3	8	49	1.48
542888--543006	63	1.9	63	98	0	229	41	0	14	44	1.45
542937--543019	24	3.4	24	66	21	73	40	0	15	43	1.47
542940--543066	49	2.6	49	94	1	218	40	0	13	45	1.43
542815--543087	112	2.4	113	85	8	364	41	0	12	45	1.46
542896--543095	63	3.2	62	82	10	198	43	0	12	44	1.41
543277--543368	19	5.2	18	66	24	61	34	1	10	53	1.43
543283--543379	16	5.9	15	69	24	54	35	1	11	52	1.44
543283--543351	8	8.2	8	73	19	52	33	1	11	53	1.46
543276--543375	35	2.9	35	89	2	159	34	1	12	53	1.45
543369--543730	98	3.7	98	87	5	475	43	3	9	44	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
543353--543743	26	15.7	25	76	11	288	42	3	9	44	1.51
543597--543730	14	10.6	11	73	21	88	44	3	8	43	1.52
543846--543890	24	1.9	24	86	4	65	40	2	4	53	1.33
543857--543898	17	2.5	17	80	0	57	40	0	2	57	1.12
544863--544907	23	2.0	23	86	0	63	55	2	4	37	1.32
546131--546164	15	2.2	16	94	5	61	55	5	0	38	1.24
546216--546291	30	2.5	32	80	8	95	47	13	1	38	1.51
546779--546853	22	3.4	22	94	0	123	25	17	49	8	1.73
546964--547073	10	10.1	10	68	16	60	10	35	32	20	1.88
549511--549546	2	18.0	2	100	0	72	50	0	0	50	1.00

Tables:   1   2   3   4