genome.fa.s8105.2.7.7.80.10.50.1000.3.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: VEPZ01008105.1 Hibiscus syriacus cultivar Beakdansim tig00110637_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5962497

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   

This is table  3  of  30  ( 3521 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)
420190--420268	2	40.0	2	97	2	151	49	0	0	50	1.00
422998--423058	24	2.5	24	100	0	122	29	11	14	44	1.81
425410--425487	25	3.1	25	62	20	63	32	2	19	46	1.63
425377--425487	50	2.2	50	96	0	204	35	2	17	45	1.63
426643--426683	21	2.0	21	95	0	73	41	0	17	41	1.49
437046--437217	71	2.4	69	81	5	177	36	23	18	20	1.95
439801--439834	2	17.0	2	100	0	68	50	0	0	50	1.00
440471--440598	59	2.2	59	82	2	150	37	9	7	45	1.66
442007--442068	2	31.0	2	100	0	124	50	0	0	50	1.00
446905--446929	7	3.6	7	100	0	50	60	0	0	40	0.97
447677--447714	13	2.9	13	84	7	51	36	2	0	60	1.11
447679--447708	10	3.0	10	95	0	51	40	3	0	56	1.16
462117--462425	135	2.3	129	82	8	345	27	29	18	25	1.98
462348--462451	40	2.5	40	78	4	109	25	31	16	26	1.96
462629--462666	13	2.9	13	84	7	51	36	2	0	60	1.11
462631--462660	10	3.0	10	95	0	51	40	3	0	56	1.16
470235--470515	93	3.0	92	84	7	341	43	15	17	24	1.87
475610--475653	17	2.6	17	100	0	88	27	25	18	29	1.98
475845--475908	3	21.0	3	83	3	74	64	0	0	35	0.94
476679--476876	97	2.0	97	99	0	387	37	15	14	33	1.87
480260--480417	21	7.8	20	70	7	77	37	25	17	18	1.93
480385--480613	20	11.4	20	82	5	239	37	25	17	19	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
481299--481352	24	2.2	24	87	6	74	24	14	20	40	1.90
481527--481551	12	2.1	12	100	0	50	72	0	28	0	0.86
483850--484035	19	10.4	19	76	19	204	46	17	22	14	1.84
483836--484015	86	2.1	84	85	12	233	46	17	22	13	1.84
483836--484015	33	5.2	33	72	18	161	46	17	22	13	1.84
483850--484053	53	3.8	53	94	3	349	45	17	23	14	1.85
484044--484178	52	2.6	52	96	0	243	16	22	17	44	1.86
484044--484178	19	7.6	19	77	15	155	16	22	17	44	1.86
484285--484321	14	2.6	14	91	0	65	45	21	0	32	1.52
486228--486381	19	8.6	19	76	14	148	46	22	19	11	1.82
486303--486359	14	3.7	14	77	20	60	45	22	21	10	1.82
486246--486376	33	3.8	33	89	5	181	47	22	19	10	1.80
486381--486471	33	2.8	33	86	6	130	8	15	25	50	1.72
486377--486505	19	7.3	19	75	17	125	9	15	27	48	1.75
486550--486832	93	3.1	93	95	0	523	45	19	12	23	1.84
488533--488596	20	3.2	20	77	4	83	46	15	23	14	1.82
488580--488636	14	3.7	14	70	20	51	45	22	22	8	1.80
488531--488653	33	3.5	33	86	10	156	47	18	22	11	1.81
488670--488726	14	3.7	14	75	20	60	8	24	22	43	1.81
488654--488734	33	2.5	33	95	0	144	8	22	22	46	1.78
488711--488786	21	3.7	21	83	3	109	11	25	17	46	1.82
488710--488787	41	1.9	41	97	0	147	12	25	16	44	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
488866--488936	33	2.2	33	94	0	124	47	16	23	11	1.79
489316--489508	20	9.6	20	83	5	219	20	18	25	35	1.95
493956--494007	26	2.0	26	100	0	104	23	11	26	38	1.89
494356--494431	36	2.1	36	85	7	100	47	1	3	47	1.29
494577--494614	20	1.9	20	88	0	58	21	26	10	42	1.85
494662--494708	21	2.2	21	100	0	94	36	10	10	42	1.74
494766--495224	111	4.1	111	91	1	699	26	14	13	45	1.82
508248--508287	21	1.9	21	85	10	55	35	10	2	52	1.48
513158--513236	22	3.7	22	81	8	92	20	24	30	25	1.98
523777--523821	21	2.1	21	84	8	56	46	4	17	31	1.68
527378--527476	21	5.0	21	69	13	66	38	7	0	54	1.28
527378--527476	20	4.9	20	65	17	53	38	7	0	54	1.28
527601--527661	18	2.9	23	74	23	78	31	9	31	27	1.89
535758--535911	69	2.2	69	95	0	272	33	12	20	33	1.91
547772--547823	26	2.0	26	88	0	77	40	21	26	11	1.87
548996--549024	4	7.2	4	100	0	58	75	0	0	24	0.80
551611--551644	2	17.0	2	100	0	68	50	0	0	50	1.00
553093--553131	3	13.0	3	100	0	78	66	0	0	33	0.92
553839--553864	13	2.0	13	100	0	52	15	0	0	84	0.62
558548--558591	21	2.1	21	100	0	88	52	4	4	38	1.42
560086--560130	14	3.0	15	81	12	56	44	0	2	53	1.13
569291--569368	2	41.0	2	90	10	128	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)
569291--569368	27	2.9	27	94	1	140	50	0	0	50	1.00
569291--569383	29	3.4	27	83	12	111	48	0	1	50	1.07
569364--569394	16	1.9	16	93	0	53	41	0	6	51	1.27
571807--571874	4	16.8	4	74	19	61	69	0	0	30	0.89
571811--571862	27	1.9	27	84	7	70	69	0	0	30	0.89
571813--571881	30	2.1	35	82	15	85	66	1	0	31	1.00
571800--571874	39	1.9	39	89	10	118	69	0	0	30	0.89
574427--574451	2	12.5	2	100	0	50	48	0	0	52	1.00
575545--575582	17	2.3	17	90	4	60	26	28	26	18	1.98
585143--585479	41	8.0	42	74	13	250	50	6	17	25	1.70
585823--585936	55	2.1	55	86	4	160	40	20	16	22	1.91
592016--592061	14	3.4	14	77	17	60	45	0	4	50	1.21
592747--592793	24	2.0	24	86	0	67	48	2	17	31	1.58
595844--595931	37	2.5	33	74	20	90	47	0	4	47	1.22
596706--596774	27	2.5	28	81	9	88	46	1	0	52	1.09
596706--596766	12	5.5	12	72	20	53	47	1	0	50	1.10
596706--596764	14	4.0	16	72	26	58	47	1	0	50	1.11
597462--597556	39	2.4	39	77	10	104	45	0	20	34	1.51
599359--599770	144	2.8	145	86	3	560	21	26	25	26	2.00
599281--599791	144	3.5	146	81	7	558	21	26	25	27	1.99
599371--599818	147	3.1	143	81	8	485	21	26	25	27	1.99
604011--604091	11	7.2	11	79	5	54	35	6	17	40	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
604040--604110	35	2.0	35	86	0	97	39	5	11	43	1.64
607773--607799	2	13.5	2	100	0	54	51	0	0	48	1.00
607996--608066	28	2.6	28	70	21	69	53	0	0	46	1.00
607870--608100	111	2.1	107	91	5	367	53	3	3	38	1.36
608028--608060	17	2.0	17	94	5	59	66	0	0	33	0.92
608011--608065	26	2.1	27	83	16	71	60	0	0	40	0.97
608083--608123	22	1.9	22	85	5	57	68	4	0	26	1.10
614336--614397	31	2.0	31	87	6	90	19	45	19	16	1.86
614351--614388	18	2.1	18	95	0	67	18	50	21	10	1.76
614371--614435	8	8.5	8	75	19	59	15	35	26	23	1.94
614326--614371	13	3.5	13	84	0	65	17	43	19	19	1.88
614366--614397	13	2.5	13	94	0	55	18	46	21	12	1.82
614390--614426	7	5.0	7	90	9	56	13	29	27	29	1.94
614390--614435	15	2.9	15	87	6	65	13	30	28	28	1.94
615714--615748	18	1.9	18	88	0	52	54	0	17	28	1.43
619348--619409	31	2.0	31	87	6	90	19	45	19	16	1.86
619363--619400	18	2.1	18	95	0	67	18	50	21	10	1.76
619383--619447	8	8.5	8	75	19	59	15	35	26	23	1.94
619335--619383	13	3.8	13	86	0	71	18	44	18	18	1.87
619378--619409	13	2.5	13	94	0	55	18	46	21	12	1.82
619402--619438	7	5.0	7	90	9	56	13	29	27	29	1.94
619402--619447	15	2.9	15	87	6	65	13	30	28	28	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
620725--620759	18	1.9	18	88	0	52	54	0	17	28	1.43
626796--626863	21	3.2	22	87	10	97	50	0	0	50	1.00
626812--626863	22	2.4	21	93	3	86	51	0	0	48	1.00
630283--630398	60	1.9	61	85	1	162	34	12	13	38	1.84
636172--636272	34	2.8	36	92	4	170	44	12	14	27	1.82
636564--636609	23	2.0	24	83	12	60	19	8	4	67	1.35
636577--636649	26	2.8	25	75	19	60	23	4	4	68	1.24
636715--636825	6	17.7	6	70	20	50	17	6	0	75	1.05
636699--636814	9	12.0	9	71	14	63	15	6	0	76	1.04
636695--636825	29	4.4	28	71	19	97	17	6	0	75	1.05

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30