genome.fa.s7984.2.7.7.80.10.50.1000.17.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  17  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)
3357201--3357436	120	2.0	118	80	8	262	39	7	8	44	1.61
3357904--3357944	20	2.0	21	85	4	57	24	9	0	65	1.22
3360469--3360558	3	30.3	3	85	6	121	37	0	0	62	0.96
3362034--3362407	126	3.1	118	76	12	346	39	8	9	42	1.68
3362195--3362413	115	1.9	116	89	0	341	36	10	10	42	1.73
3362224--3362457	115	2.0	113	79	6	247	39	9	9	41	1.70
3366261--3366304	15	2.9	15	86	3	52	29	20	2	47	1.62
3373638--3373681	10	4.4	10	86	8	63	86	0	11	2	0.66
3373636--3373692	20	3.0	19	87	10	89	82	0	15	1	0.75
3373638--3373692	9	5.9	9	80	16	67	83	0	14	1	0.73
3374955--3375302	115	3.0	115	94	0	599	33	14	21	29	1.93
3375986--3376269	112	2.5	113	93	2	482	38	15	16	28	1.90
3376171--3376308	73	1.9	73	86	3	197	35	15	14	34	1.89
3376171--3376342	73	2.4	73	83	2	193	36	16	15	32	1.90
3376244--3376582	109	3.0	112	85	3	441	38	14	17	28	1.89
3376062--3376455	186	2.1	185	87	1	558	37	14	17	30	1.90
3376527--3376826	124	2.5	124	81	7	321	43	16	17	24	1.88
3376965--3377062	3	33.0	3	86	6	128	38	0	0	61	0.96
3376970--3377062	15	6.2	15	92	5	143	39	0	0	60	0.97
3378484--3378838	126	2.9	126	79	8	287	37	8	9	43	1.68
3378622--3378836	115	1.9	112	86	6	308	36	9	10	43	1.73
3381995--3382033	11	3.5	11	78	0	51	79	0	17	2	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3381994--3382041	22	2.2	21	96	3	87	81	0	16	2	0.79
3386815--3386869	22	2.5	22	93	0	101	34	10	14	40	1.81
3387545--3388258	76	9.4	76	97	0	1329	24	19	21	34	1.96
3388406--3388490	3	28.7	3	82	7	93	37	1	0	61	1.04
3388406--3388490	22	3.9	22	81	7	102	37	1	0	61	1.04
3389932--3390164	120	2.0	120	82	5	285	37	7	8	45	1.64
3390036--3390077	20	2.2	19	86	4	57	33	0	2	64	1.07
3390128--3390190	29	2.2	29	80	5	74	50	0	1	47	1.10
3394834--3394893	24	2.5	25	76	13	63	30	1	8	60	1.36
3394904--3394952	25	1.9	25	83	4	62	40	2	2	55	1.23
3405663--3405699	20	1.9	19	89	10	58	45	10	24	18	1.81
3407837--3407950	56	2.0	57	96	1	212	21	18	28	31	1.97
3414277--3414305	2	15.0	2	92	7	51	48	0	0	51	1.00
3414619--3414684	19	3.4	18	71	24	55	62	1	15	21	1.41
3419225--3419299	23	3.3	23	85	7	102	26	18	25	29	1.98
3425616--3425717	44	2.3	44	91	0	177	50	5	8	35	1.58
3428122--3428165	20	2.3	19	81	11	54	36	0	0	63	0.95
3429916--3429984	18	3.8	18	92	0	111	26	33	23	17	1.96
3432635--3432664	2	15.0	2	100	0	60	50	0	0	50	1.00
3433933--3434011	18	4.4	18	91	0	122	27	31	21	18	1.97
3435970--3436011	21	1.9	21	85	9	57	52	0	2	45	1.13
3436096--3436139	16	2.7	16	89	3	61	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3436100--3436146	20	2.3	21	78	14	53	48	0	0	51	1.00
3439157--3439219	31	2.0	31	90	0	99	36	26	11	25	1.90
3441095--3441216	40	3.0	40	91	0	208	34	25	15	24	1.95
3442063--3442124	30	2.1	29	82	5	72	38	17	8	35	1.80
3443422--3443527	18	5.9	18	91	2	151	30	33	19	16	1.94
3447877--3447928	18	2.9	17	91	5	77	28	34	19	17	1.94
3448797--3448937	64	2.2	63	80	12	155	23	21	19	35	1.96
3452334--3452457	18	6.9	18	89	1	187	26	33	20	19	1.97
3453326--3453466	64	2.2	63	80	12	155	23	21	19	35	1.96
3454969--3455039	35	2.1	35	86	2	99	40	16	0	42	1.49
3455080--3455129	23	2.1	24	82	17	61	44	0	2	54	1.11
3467314--3467711	42	9.4	41	80	6	323	35	16	20	27	1.94
3467298--3467711	169	2.4	168	82	2	497	35	16	20	27	1.94
3467316--3467725	127	3.2	127	80	2	430	35	16	20	27	1.94
3471812--3471863	21	2.5	21	81	3	61	38	19	25	17	1.93
3471852--3471986	20	6.7	20	80	7	121	33	24	17	24	1.96
3471849--3471980	61	2.2	61	87	0	183	35	24	16	23	1.95
3472155--3472198	22	2.0	22	90	0	70	20	38	15	25	1.92
3472156--3472204	22	2.3	21	86	6	64	20	38	14	26	1.91
3472461--3472519	20	3.0	20	87	0	73	16	18	22	42	1.89
3472656--3472710	25	2.2	24	78	9	56	18	9	20	52	1.71
3473834--3473878	18	2.5	18	88	0	72	26	44	15	13	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3474249--3474277	12	2.3	13	94	5	51	0	3	17	79	0.87
3474334--3474379	20	2.3	20	84	0	56	36	23	21	17	1.94
3474345--3474389	20	2.3	20	84	3	65	37	20	24	17	1.93
3474373--3474469	19	5.6	19	70	22	88	47	19	18	14	1.83
3474373--3474464	33	2.8	33	93	0	148	48	19	17	14	1.80
3474507--3474562	20	2.8	19	86	7	76	16	25	23	35	1.94
3474925--3475012	41	2.1	41	85	2	122	21	43	14	20	1.88
3476544--3476578	14	2.5	14	95	0	61	48	20	20	11	1.79
3476610--3476697	20	4.4	20	75	5	97	17	21	21	39	1.92
3476908--3476999	20	4.6	20	71	2	67	20	17	21	40	1.92
3478024--3478057	13	2.7	13	95	4	61	76	0	23	0	0.79
3480318--3480409	19	5.4	18	63	24	56	45	18	19	16	1.85
3480318--3480431	33	3.5	33	84	4	158	43	18	21	15	1.87
3480462--3480520	19	3.4	19	71	22	65	13	22	18	45	1.84
3480442--3480520	33	2.4	33	93	0	131	11	25	20	43	1.85
3480627--3480663	14	2.6	14	91	0	65	45	24	0	29	1.53
3482004--3482070	21	3.2	21	68	4	55	19	20	35	23	1.95
3482343--3482522	95	2.0	84	87	11	252	47	19	11	21	1.81
3484208--3484280	19	4.1	19	77	13	75	41	21	23	13	1.89
3484867--3484920	20	2.6	21	91	2	83	20	22	18	38	1.93
3484910--3485085	21	8.5	21	69	11	69	32	18	21	27	1.96
3484910--3485085	41	4.3	41	68	9	106	32	18	21	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3484992--3485043	20	2.5	21	87	3	70	21	23	17	38	1.93
3484889--3485107	103	2.1	102	83	6	264	30	19	20	29	1.97
3485357--3485397	13	3.0	13	89	7	55	65	9	0	24	1.22
3486507--3486545	10	3.9	10	89	0	60	61	0	0	38	0.96
3486511--3486557	20	2.3	20	82	7	60	59	4	0	36	1.17
3490870--3490909	21	1.9	21	94	0	71	35	25	20	20	1.96
3500580--3500619	21	1.9	21	85	10	55	37	0	10	52	1.35
3506559--3506597	13	2.9	13	88	3	51	38	10	7	43	1.67
3507101--3507435	180	1.9	180	92	0	562	30	17	18	34	1.93
3508480--3508518	20	2.0	20	94	0	69	25	23	15	35	1.94
3508675--3508714	21	1.9	21	89	0	62	35	22	20	22	1.96
3516487--3516527	20	2.0	20	95	0	73	39	17	14	29	1.89
3520735--3520805	34	2.1	33	86	2	97	25	29	14	30	1.94
3521161--3521228	19	3.9	18	74	20	72	17	23	36	22	1.94
3521499--3521556	18	3.1	18	80	11	71	50	10	8	31	1.67
3522569--3522618	20	2.5	20	96	0	91	32	12	4	52	1.57
3522665--3522708	20	2.2	20	100	0	88	36	4	13	45	1.64
3523495--3523566	35	2.1	35	97	0	135	34	25	8	31	1.85
3529269--3529309	11	3.8	10	87	12	55	14	12	0	73	1.11
3529513--3529581	19	3.8	19	71	21	67	17	21	39	21	1.93
3531242--3531303	24	2.6	25	85	10	94	27	25	25	20	1.99
3538062--3538221	81	2.0	80	86	6	225	31	13	23	30	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3538354--3538403	23	2.2	23	88	0	73	38	6	22	34	1.78
3538432--3538479	23	2.1	23	84	7	62	37	10	18	33	1.85
3539532--3539580	20	2.5	20	80	16	57	20	18	10	51	1.75
3539328--3540686	182	7.6	181	90	3	2007	27	15	12	43	1.84
3545519--3545601	2	43.0	2	92	7	145	50	0	0	49	1.00
3547664--3547735	27	2.7	27	75	18	78	22	11	0	66	1.22
3555697--3555733	19	1.9	20	88	5	58	21	10	21	45	1.82
3555723--3555821	47	2.1	47	96	0	162	27	14	17	41	1.87
3565073--3565139	34	1.9	35	91	8	111	35	10	23	29	1.89
3568811--3568858	21	2.3	21	85	0	60	43	18	33	4	1.69

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