genome.fa.s7984.2.7.7.80.10.50.1000.4.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: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12923621

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   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   

This is table  4  of  65  ( 7696 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)
611959--612009	23	2.3	22	83	6	59	35	13	7	43	1.73
613514--613564	9	5.3	9	79	11	57	15	21	29	33	1.94
613513--613550	20	1.9	20	94	0	67	18	18	28	34	1.95
613564--613652	17	5.1	17	90	8	135	16	47	23	12	1.81
613561--613652	18	5.2	18	90	7	145	17	46	23	11	1.81
613667--613822	82	1.9	83	89	6	246	28	5	18	47	1.70
617317--617469	31	4.9	31	89	0	225	39	20	16	23	1.92
618569--618626	31	1.9	31	85	3	82	36	24	8	31	1.85
620411--620459	24	2.1	24	84	3	64	42	12	10	34	1.76
620449--620498	21	2.3	21	75	18	50	34	12	14	40	1.82
623162--623229	10	6.8	10	75	11	59	13	17	27	41	1.87
623177--623214	11	3.5	11	78	7	51	13	10	28	47	1.76
623167--623222	21	2.7	21	97	0	103	12	14	26	46	1.80
623234--623292	18	3.3	18	90	0	100	16	47	23	11	1.80
623279--623325	10	5.5	8	82	14	51	14	34	27	23	1.94
623282--623315	15	2.1	16	89	10	52	11	35	29	23	1.90
625680--625795	24	4.8	24	88	4	171	23	17	19	39	1.92
626009--626033	2	12.5	2	100	0	50	48	0	0	52	1.00
633772--633810	20	2.0	20	94	0	69	28	0	28	43	1.55
634612--634644	16	2.0	17	88	5	50	51	0	21	27	1.48
635377--635456	26	3.2	26	65	31	73	51	6	18	23	1.69
637516--637548	2	16.0	2	93	6	57	48	0	3	48	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
640328--640506	14	12.3	14	68	17	62	37	1	56	4	1.30
640431--640506	8	9.6	8	74	16	61	35	1	61	1	1.12
640431--640505	27	2.9	28	77	16	81	34	1	62	1	1.12
640994--641048	28	2.0	28	85	0	74	25	16	10	47	1.79
641354--641397	16	2.6	17	82	3	63	22	0	9	68	1.18
641354--641406	17	3.2	16	76	7	52	24	0	7	67	1.16
642578--642700	22	5.4	22	85	14	153	46	0	8	45	1.33
642846--642908	26	2.4	25	79	10	65	12	9	1	76	1.09
642858--642896	15	2.5	16	83	4	53	10	7	2	79	1.02
644073--644123	20	2.5	20	90	6	77	33	17	29	19	1.95
644540--645040	54	9.3	54	88	0	689	28	17	19	34	1.95
644541--645040	162	3.1	162	89	2	772	28	17	19	34	1.94
645010--645204	55	3.6	54	84	5	241	32	16	21	28	1.96
645470--645604	68	2.0	68	89	2	209	31	14	24	30	1.94
645625--645959	46	7.2	46	81	6	374	45	8	22	23	1.80
645791--645985	46	4.2	46	73	10	141	42	9	23	25	1.83
647401--647429	15	2.0	15	93	6	51	17	6	0	75	1.01
648493--648534	15	2.7	15	85	10	50	7	7	7	78	1.09
654635--654706	36	2.0	36	94	0	126	38	16	11	33	1.84
654818--654968	24	6.4	24	79	13	111	47	0	5	47	1.25
654838--654900	2	31.5	2	100	0	126	50	0	0	49	1.00
654888--654967	22	3.6	21	83	10	88	48	0	5	46	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
661213--661261	22	2.2	22	100	0	98	46	20	8	24	1.77
661256--661379	60	2.1	60	98	0	239	45	29	5	19	1.73
661416--661466	22	2.3	22	93	0	84	17	45	17	19	1.86
661819--661885	20	3.3	20	93	0	107	35	25	19	19	1.95
661892--661958	19	3.8	19	72	22	65	47	19	19	13	1.82
661879--661958	33	2.4	33	87	4	108	46	18	21	13	1.84
661923--661963	19	2.2	19	90	0	64	51	19	14	14	1.77
661931--661975	19	2.4	19	80	0	54	44	22	15	17	1.86
661970--662126	20	8.5	20	73	16	65	14	18	21	45	1.84
661981--662015	14	2.5	14	95	0	61	14	20	20	45	1.85
661964--662030	34	2.0	33	91	2	107	14	20	17	46	1.84
661964--662043	33	2.4	34	89	2	117	13	22	18	45	1.85
662076--662133	20	2.9	20	89	0	89	13	10	20	55	1.68
663898--663941	20	2.2	20	91	0	70	52	22	13	11	1.72
663928--663978	20	2.5	20	90	0	84	35	25	23	15	1.94
664015--664050	14	2.6	14	86	0	54	50	22	16	11	1.77
664029--664067	20	2.0	20	89	0	60	48	15	20	15	1.81
664144--664193	20	2.5	20	90	0	73	16	16	26	42	1.88
664585--664703	42	2.8	42	88	0	157	21	35	19	23	1.96
664591--664703	21	5.4	21	77	4	111	21	35	20	23	1.96
666262--666313	20	2.6	20	87	0	77	44	25	17	13	1.85
666314--666645	20	17.2	20	79	12	192	26	20	20	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
666306--666645	40	8.8	40	78	10	298	26	20	20	32	1.97
666415--666625	114	1.9	114	92	0	359	28	19	19	31	1.97
666314--666645	134	2.5	135	87	3	456	26	20	20	32	1.97
666662--666699	19	2.0	19	94	0	67	55	21	7	15	1.66
666830--666870	18	2.3	18	91	0	64	17	2	26	53	1.56
668893--668929	14	2.5	15	91	4	58	2	24	21	51	1.61
670140--670198	20	3.0	20	92	0	100	23	16	30	28	1.97
671303--671385	40	2.0	41	95	4	150	50	2	12	34	1.52
673755--673860	39	2.8	38	85	5	144	53	7	7	31	1.57
675279--675343	2	33.5	2	93	6	116	49	0	0	50	1.00
675341--675404	22	2.8	24	75	22	66	43	1	0	54	1.09
675375--675488	41	2.8	42	80	10	130	50	0	2	46	1.21
697434--697478	23	1.9	24	90	4	74	37	17	11	33	1.85
699312--699366	25	2.2	25	96	3	103	25	25	10	38	1.88
705496--705562	20	3.3	20	77	6	64	28	14	26	29	1.96
706250--706389	70	2.0	70	90	0	217	27	9	15	48	1.75
710451--710563	40	2.8	40	95	0	199	24	19	8	46	1.78
711399--711440	22	1.9	22	85	0	57	57	21	7	14	1.61
714938--715015	21	3.7	21	77	3	59	43	8	6	41	1.62
715660--715700	21	2.0	21	90	4	66	34	17	14	34	1.90
719234--719273	21	2.0	20	85	5	53	37	15	10	37	1.80
723599--723627	14	2.0	15	93	6	51	34	0	10	55	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
729246--729279	15	2.2	16	89	5	52	23	17	32	26	1.97
730933--731127	29	6.7	29	85	2	212	43	23	11	22	1.85
730939--731127	59	3.2	58	82	6	213	42	24	11	21	1.86
731142--731187	18	2.6	18	100	0	92	8	21	52	17	1.71
738182--738345	29	5.7	29	88	0	139	43	22	10	23	1.83
738190--738345	58	2.7	57	88	5	199	43	23	10	21	1.84
738353--738427	18	4.2	18	89	1	116	13	21	46	18	1.83
745398--745532	29	4.7	29	88	0	171	43	24	8	22	1.82
745550--745593	18	2.4	18	100	0	88	9	22	52	15	1.71
745540--745583	23	2.0	22	90	4	70	11	22	47	18	1.80
746977--747045	21	3.3	21	77	0	66	30	11	15	42	1.83
746989--747054	21	3.1	21	77	0	69	25	15	16	42	1.87
751003--751029	7	3.9	7	100	0	54	29	0	29	40	1.57
751170--751258	21	4.2	21	79	0	88	25	13	17	42	1.86
751264--751315	21	2.5	21	100	0	104	15	25	21	38	1.92
752509--753261	135	5.6	135	84	3	922	31	18	17	32	1.94
752508--753254	271	2.8	272	85	2	995	31	18	17	32	1.95
756771--756822	20	2.6	20	81	6	61	36	15	26	21	1.93
757316--757627	45	7.8	41	71	23	220	35	12	23	28	1.91
757306--757627	79	4.1	79	91	0	511	36	12	23	27	1.90
757518--757586	34	2.0	34	91	5	113	37	11	24	26	1.89
757306--757627	157	2.0	158	91	1	522	36	12	23	27	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
763748--763798	20	2.5	20	87	6	77	33	17	29	19	1.95
763823--763893	19	3.5	19	71	19	63	29	16	28	25	1.97
764986--765026	17	2.4	17	91	0	64	14	26	31	26	1.95
769446--769486	17	2.4	17	91	0	64	12	26	31	29	1.92
770599--770911	45	7.8	41	73	21	263	34	11	25	28	1.90
770644--770708	34	1.9	34	93	0	112	35	10	26	27	1.90
770589--770911	79	4.1	79	94	0	556	35	10	24	28	1.89
770723--770861	34	3.8	34	75	18	134	33	10	23	31	1.89
770840--770944	45	2.3	45	85	6	133	33	12	22	31	1.91
773218--773283	24	2.8	23	84	6	96	45	10	10	33	1.73

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   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65