genome.fa.s7960.2.7.7.80.10.50.1000.4.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: VEPZ01007960.1 Hibiscus syriacus cultivar Beakdansim tig00110387_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7905731

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   31   32   
          33   34   35   36   37   38   39   

This is table  4  of  39  ( 4646 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)
643834--643908	35	2.1	35	92	0	123	36	0	20	44	1.52
647977--648028	3	17.0	3	84	4	68	40	0	0	59	0.97
649321--649370	15	3.3	15	73	15	50	28	6	0	66	1.15
649350--649438	20	4.0	22	72	25	64	30	3	4	61	1.32
649441--649473	15	2.3	15	89	5	50	42	0	0	57	0.98
653439--653469	6	5.3	6	96	3	55	0	16	70	12	1.16
653622--653672	25	2.0	25	81	7	59	62	0	0	37	0.95
653610--653694	34	2.5	34	98	0	161	60	0	0	40	0.97
654317--654342	11	2.4	11	100	0	52	38	19	15	26	1.91
657287--657314	2	14.0	2	100	0	56	50	0	0	50	1.00
661377--661410	15	2.2	16	89	5	52	76	5	2	14	1.09
663094--663175	3	27.7	3	97	2	157	68	0	0	31	0.90
663336--663448	40	2.7	44	70	12	110	28	19	28	23	1.98
663362--663673	134	2.3	134	92	0	525	26	18	29	25	1.98
664618--664653	16	2.2	16	90	9	56	11	13	0	75	1.06
664646--664675	15	1.9	16	93	6	53	10	26	0	63	1.26
676105--676138	15	2.2	16	89	5	52	76	5	2	14	1.09
677817--677885	3	22.7	3	91	8	113	69	0	0	30	0.89
680780--680836	23	2.6	22	78	8	71	50	8	3	36	1.50
680935--681025	32	2.9	32	86	4	114	54	6	4	34	1.46
684116--684472	31	11.9	29	74	14	187	55	1	5	37	1.31
684174--684298	61	2.0	62	80	10	141	57	0	2	39	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
684308--684422	29	3.8	32	87	7	93	52	0	6	40	1.35
684309--684449	57	2.4	61	85	5	191	52	0	8	38	1.37
684309--684480	57	2.9	58	78	11	156	53	0	8	37	1.35
684938--685248	52	6.0	52	95	1	536	40	6	28	24	1.80
684938--685248	103	3.0	104	94	1	536	40	6	28	24	1.80
690816--691349	98	5.4	98	66	14	265	36	5	10	47	1.61
690813--691414	198	3.0	196	84	3	726	37	5	10	46	1.62
694084--694260	44	3.8	47	81	10	202	31	21	7	39	1.82
694365--694486	40	3.0	40	96	0	226	32	25	17	24	1.96
701074--701250	44	3.8	47	78	10	175	30	22	7	39	1.81
701105--701204	51	1.9	53	87	4	150	31	20	8	41	1.81
701355--701516	40	4.1	40	97	0	306	33	26	16	23	1.96
704255--705036	406	1.9	411	83	7	1030	42	8	9	39	1.66
707160--707259	44	2.3	44	89	3	148	34	18	19	29	1.95
707180--707258	24	3.5	24	71	13	76	34	15	18	31	1.92
709529--709563	18	1.9	18	94	0	61	71	11	0	17	1.14
709903--709954	20	2.6	20	96	0	95	23	23	26	26	2.00
719066--719098	16	2.0	17	88	5	50	54	3	0	42	1.15
720649--720878	43	5.3	43	79	5	223	36	16	20	26	1.94
722289--722444	78	2.0	77	96	1	285	35	18	19	25	1.95
724462--724646	43	4.3	43	79	6	178	36	17	19	27	1.94
724486--724646	85	1.9	86	85	3	227	35	18	18	28	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
736577--736662	30	2.6	35	75	24	121	36	6	20	36	1.80
736594--736702	29	3.8	29	91	4	168	40	5	18	35	1.74
736594--736702	57	1.9	58	88	5	168	40	5	18	35	1.74
743664--743772	20	5.4	20	72	17	57	33	27	11	27	1.92
743714--743772	20	2.8	22	85	12	72	37	25	10	27	1.88
743715--743801	41	2.1	40	81	8	95	33	25	11	29	1.91
743696--743802	20	5.2	21	79	9	71	30	26	13	29	1.93
743785--743833	20	2.5	20	86	6	64	24	28	12	34	1.91
743806--743901	40	2.4	40	82	3	104	30	23	12	33	1.92
744031--744084	22	2.5	22	93	3	92	24	38	9	27	1.86
744826--744892	24	2.8	24	86	2	91	28	17	16	37	1.92
747157--747192	18	2.0	18	88	0	54	55	16	2	25	1.55
747480--747518	20	2.0	20	100	0	78	46	17	20	15	1.84
747520--747636	49	2.4	49	89	0	171	32	21	18	27	1.97
749145--749223	21	3.8	21	86	0	113	20	17	39	22	1.92
749145--749224	42	1.9	42	94	0	142	21	17	38	22	1.93
749368--749413	4	11.5	4	85	0	65	69	2	2	26	1.11
749800--749898	42	2.4	42	87	0	144	17	18	36	28	1.93
751394--751476	20	4.2	20	87	3	69	50	20	13	15	1.77
751418--751479	19	3.2	19	90	2	97	45	24	16	14	1.84
751841--751909	22	3.1	22	89	0	102	21	17	43	17	1.88
761957--762107	66	2.3	66	91	0	239	31	19	24	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
762001--762203	111	1.8	111	91	0	334	32	22	24	20	1.98
764069--764235	82	2.0	83	92	1	282	28	8	18	44	1.79
765295--765392	25	3.7	25	80	10	90	58	0	4	37	1.17
765253--765583	30	11.2	29	76	10	269	54	0	6	38	1.31
769069--769121	20	2.7	20	94	2	90	16	16	13	52	1.74
770416--770496	18	4.5	18	84	0	90	38	12	27	22	1.90
775291--775341	18	2.8	18	100	0	102	54	5	21	17	1.63
776121--776170	3	16.7	3	100	0	100	66	0	0	34	0.92
777511--777721	79	2.6	80	80	5	228	30	18	8	41	1.81
777689--777821	53	2.5	53	85	3	178	27	21	9	41	1.84
779712--779745	2	17.0	2	100	0	68	50	0	0	50	1.00
779804--779863	2	30.0	2	100	0	120	50	0	0	50	1.00
780200--780242	3	14.3	3	100	0	86	67	0	0	32	0.91
782271--782323	26	2.0	26	100	0	106	45	32	0	22	1.53
784577--784619	3	13.7	3	85	9	59	67	2	0	30	1.03
784577--784628	13	4.1	13	83	16	65	65	1	1	30	1.14
785046--785384	124	2.7	124	89	0	536	27	19	14	38	1.90
786544--786583	18	2.2	18	95	0	71	60	7	5	27	1.45
786931--786969	17	2.2	17	86	4	51	7	7	0	84	0.77
786946--786970	9	2.8	9	100	0	50	0	8	0	92	0.40
786946--786979	10	3.4	10	92	8	52	2	8	0	88	0.62
786931--786982	18	2.8	19	82	5	63	7	9	0	82	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
794325--794356	15	2.1	15	94	0	55	40	12	21	25	1.88
797552--797593	21	2.0	20	86	13	59	71	4	0	23	1.05
797572--797632	28	2.1	28	85	8	79	60	1	4	32	1.28
799842--799890	3	16.7	3	83	12	66	65	2	0	32	1.04
799842--799890	22	2.2	22	89	7	73	65	2	0	32	1.04
799842--799899	13	4.6	13	82	18	70	63	1	1	32	1.14
801085--801780	3	238.7	3	91	7	1143	66	0	32	0	0.97
806903--806963	18	3.4	18	81	6	79	8	36	13	42	1.74
809335--809373	15	2.4	16	87	8	53	35	23	10	30	1.88
809458--809519	2	31.0	2	100	0	124	50	0	0	50	1.00
812552--812598	22	2.1	22	96	0	85	44	14	4	36	1.65
812823--812882	29	2.1	29	81	12	70	26	1	36	35	1.67
815676--815710	3	11.3	3	87	6	52	40	0	0	60	0.97
815665--815712	22	2.2	22	84	0	60	41	0	0	58	0.98
815711--815736	2	13.0	2	100	0	52	50	0	0	50	1.00
816615--816644	7	4.3	7	100	0	60	73	0	13	13	1.10
817293--817334	2	21.5	2	95	4	77	50	0	0	50	1.00
822827--822851	9	2.8	9	100	0	50	72	0	28	0	0.86
826066--826383	54	5.9	54	84	2	415	38	15	20	26	1.92
826065--826382	108	2.9	108	91	0	501	38	14	21	26	1.92
826735--826825	22	4.1	22	85	4	121	36	12	12	39	1.80
827489--828379	76	11.8	76	92	1	1459	23	20	21	34	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
829622--829702	3	26.0	3	87	7	117	38	0	0	61	0.96
831198--831226	5	5.8	5	100	0	58	0	20	58	20	1.39
831394--831787	196	2.0	199	91	4	643	21	12	30	35	1.91
831652--831738	38	2.3	37	84	3	120	11	9	37	41	1.73
835491--835551	20	2.9	21	85	7	70	19	26	32	21	1.97
838172--838258	43	2.0	43	100	0	174	37	16	9	36	1.80
839407--839446	21	1.9	21	94	0	71	40	7	0	52	1.30
839409--839453	21	2.2	21	88	4	65	42	4	0	53	1.21
841886--841924	16	2.4	16	100	0	78	30	30	5	33	1.79
842061--842106	25	1.9	23	86	8	65	32	4	2	60	1.28

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   31   32   
          33   34   35   36   37   38   39