genome.fa.s8243.2.7.7.80.10.50.1000.17.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: VEPZ01008243.1 Hibiscus syriacus cultivar Beakdansim tig00110893_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10265705

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   

This is table  17  of  49  ( 5786 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)
3186731--3186816	43	2.0	43	97	2	165	37	18	9	34	1.83
3192152--3192184	2	16.5	2	100	0	66	51	0	0	48	1.00
3194659--3194778	35	3.3	36	87	5	172	42	20	5	32	1.73
3194710--3194770	21	3.2	21	65	29	64	40	21	4	32	1.74
3194669--3194808	35	4.0	34	84	7	140	42	19	6	32	1.76
3198840--3198871	16	2.0	16	93	0	55	34	25	6	34	1.81
3199268--3199386	35	3.3	36	84	5	152	45	19	2	32	1.64
3199320--3199379	21	3.2	21	65	30	62	43	20	5	31	1.73
3199920--3199964	21	2.1	21	83	0	54	20	26	6	46	1.75
3200593--3200617	9	2.8	9	100	0	50	48	20	8	24	1.76
3200631--3201019	183	2.1	183	90	3	617	45	7	3	43	1.48
3205476--3205538	23	2.6	24	78	19	60	50	1	0	47	1.10
3205493--3205556	22	2.9	23	81	6	71	48	1	0	50	1.10
3205673--3205741	19	3.6	18	71	21	52	49	1	1	47	1.19
3205636--3205721	27	3.1	27	71	18	70	47	1	2	48	1.22
3205736--3205780	23	2.0	23	86	0	63	53	2	2	42	1.25
3205820--3205890	29	2.3	29	83	9	88	49	2	0	47	1.16
3206759--3206783	7	3.6	7	100	0	50	72	0	0	28	0.86
3207373--3207418	23	2.0	23	86	4	65	28	2	2	67	1.14
3208405--3208443	21	1.9	21	89	5	62	53	17	12	15	1.72
3211266--3211295	15	2.0	15	93	0	51	16	13	23	46	1.82
3214193--3214262	31	2.3	31	80	5	79	15	15	15	52	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3220507--3220546	21	2.0	20	90	5	62	40	5	0	55	1.22
3229626--3229650	13	1.9	13	100	0	50	20	24	16	40	1.91
3229830--3229882	17	3.1	17	86	0	79	20	3	28	47	1.68
3230014--3230052	17	2.4	17	86	4	62	35	2	0	61	1.10
3234121--3234188	35	1.9	35	90	0	109	36	11	7	44	1.69
3239523--3239611	46	1.9	46	100	0	178	28	4	28	39	1.76
3247718--3247965	130	1.9	130	92	0	415	35	14	13	37	1.85
3248284--3248346	28	2.3	27	78	8	63	46	1	3	49	1.27
3248425--3248457	16	2.0	17	88	5	50	63	6	3	27	1.32
3248577--3248619	21	2.0	21	100	0	86	39	0	13	46	1.44
3248588--3248673	35	2.5	35	84	0	100	37	1	20	40	1.61
3251163--3251225	20	3.2	20	100	0	126	47	4	19	28	1.69
3253385--3253631	122	2.0	124	95	1	444	48	5	5	40	1.49
3253809--3253907	49	2.0	50	98	2	191	22	12	10	55	1.66
3273676--3273709	16	2.1	16	94	0	59	14	5	11	67	1.39
3278477--3278515	19	2.1	19	85	0	51	58	0	5	35	1.20
3284653--3284708	23	2.4	23	85	5	69	23	23	21	32	1.98
3290066--3290122	23	2.5	23	85	0	78	21	24	28	26	1.99
3293341--3293371	15	2.1	15	100	0	62	70	0	0	29	0.87
3293328--3293371	20	2.3	19	88	4	61	70	0	0	29	0.88
3293711--3293771	26	2.3	26	83	5	70	36	11	9	42	1.74
3306875--3306936	19	3.2	20	74	23	60	16	32	16	35	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3308249--3308321	35	2.1	35	100	0	146	36	26	2	34	1.71
3311342--3311414	28	2.6	28	93	4	121	20	41	28	9	1.84
3311472--3311527	28	2.0	28	100	0	112	35	32	28	3	1.74
3311818--3311858	12	3.2	12	83	12	55	56	17	0	26	1.41
3311905--3312013	42	2.6	41	74	20	100	49	11	0	39	1.38
3312077--3312115	16	2.3	18	86	8	55	56	5	0	38	1.22
3312120--3312170	16	3.2	16	78	10	61	1	37	0	60	1.08
3312317--3312429	49	2.4	46	86	8	156	21	18	38	21	1.93
3312317--3312416	49	2.1	50	90	7	163	22	19	39	20	1.93
3312414--3312450	19	1.9	19	100	0	74	10	18	43	27	1.83
3312459--3312547	27	3.2	28	90	4	128	24	30	32	12	1.92
3312538--3312595	29	2.0	28	90	3	89	8	32	32	25	1.86
3312690--3312764	28	2.6	29	93	4	125	9	26	42	21	1.83
3314439--3314547	44	2.6	41	76	18	107	27	17	13	41	1.87
3315874--3315916	3	14.0	3	90	4	59	30	0	4	65	1.13
3316798--3316852	24	2.4	22	84	6	65	63	7	3	25	1.37
3325451--3325487	17	2.1	18	90	5	58	27	10	32	29	1.90
3329985--3330017	3	11.0	3	100	0	66	66	0	33	0	0.92
3334049--3334127	4	19.2	4	75	12	63	31	3	0	64	1.11
3334054--3334127	19	3.4	21	74	20	71	32	4	0	63	1.13
3334037--3334115	34	2.3	34	82	10	99	32	3	1	62	1.21
3335439--3335499	2	30.5	2	100	0	122	49	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3340323--3340356	15	2.1	17	89	10	54	67	2	0	29	1.05
3340339--3340391	21	2.5	20	76	11	52	66	5	1	26	1.25
3341789--3341861	32	2.3	32	92	0	119	45	1	6	46	1.38
3346329--3346360	6	5.3	6	92	0	55	65	0	0	34	0.93
3346788--3346824	2	18.5	2	100	0	74	51	0	0	48	1.00
3354363--3354426	21	3.0	21	81	4	65	23	35	25	15	1.94
3354365--3354446	21	3.8	21	74	17	62	23	37	24	14	1.92
3360211--3360269	5	11.8	5	87	0	73	5	37	37	20	1.75
3361379--3361412	2	17.0	2	100	0	68	50	0	0	50	1.00
3368197--3368239	20	2.2	20	83	8	52	23	9	30	37	1.86
3376739--3376810	20	3.5	20	84	1	90	41	16	23	18	1.89
3376799--3376933	20	6.7	20	80	7	121	33	24	17	24	1.96
3376796--3376933	61	2.3	61	85	0	195	34	23	17	23	1.96
3377398--3377461	20	3.2	20	86	0	83	15	18	21	43	1.87
3377598--3377652	25	2.2	24	78	15	58	20	9	18	52	1.71
3378781--3378825	18	2.5	18	88	0	72	26	44	15	13	1.83
3379284--3379350	20	3.4	20	81	2	73	38	23	22	14	1.92
3379339--3379396	14	3.9	14	79	16	71	48	24	17	10	1.78
3379323--3379413	32	2.8	33	94	3	166	47	21	18	12	1.81
3379430--3379487	14	3.9	14	75	16	62	12	17	22	48	1.80
3379425--3379503	32	2.4	32	91	2	131	12	18	21	46	1.82
3379488--3379543	20	2.8	19	86	7	76	16	25	23	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3379916--3379985	21	3.3	20	72	7	59	24	41	15	18	1.89
3379909--3379997	42	2.1	42	89	0	133	22	42	14	20	1.88
3381415--3381450	14	2.6	14	90	0	54	30	0	22	47	1.52
3382842--3382935	33	2.8	33	93	0	161	12	23	20	43	1.86
3382875--3382935	19	3.5	19	72	21	69	11	22	21	44	1.84
3383042--3383078	14	2.6	14	91	0	65	45	24	0	29	1.53
3384431--3384497	21	3.2	21	68	4	55	19	20	35	23	1.95
3384769--3384952	91	2.0	90	88	9	275	47	19	11	21	1.80
3386629--3386783	19	8.8	19	69	22	106	43	20	23	12	1.85
3386678--3386766	14	5.6	14	71	23	70	41	22	24	11	1.86
3386654--3386783	33	3.9	33	94	1	206	42	21	24	11	1.86
3386778--3386826	17	2.7	18	87	6	64	12	18	24	44	1.84
3387376--3387446	20	3.5	20	83	7	74	21	21	22	35	1.96
3387443--3387498	20	2.7	21	80	5	69	42	16	21	19	1.89
3391089--3391161	20	3.8	20	90	5	114	38	20	16	24	1.93
3391330--3391374	22	2.0	22	91	0	72	15	44	20	20	1.87
3392103--3392134	14	2.3	14	100	0	64	25	12	18	43	1.85
3393560--3393608	21	2.3	21	85	0	62	22	18	28	30	1.97
3393883--3393962	21	3.8	21	82	12	85	23	40	13	22	1.90
3395444--3395482	14	2.9	14	88	11	55	12	15	28	43	1.83
3395469--3395520	20	2.6	20	87	0	77	17	17	23	42	1.89
3399018--3399055	20	2.0	20	89	5	60	36	10	2	50	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3399019--3399064	20	2.2	20	84	7	56	41	13	2	43	1.55
3400887--3400914	3	9.3	3	100	0	56	0	35	0	64	0.94
3401258--3401291	12	2.8	12	90	0	50	14	0	29	55	1.40
3402078--3402227	20	7.4	20	67	15	94	32	10	23	33	1.89
3402079--3402246	40	4.2	40	76	9	171	31	11	24	32	1.90
3402095--3402333	20	11.8	20	69	17	118	28	11	26	33	1.91
3402220--3402309	42	2.2	39	82	11	101	26	12	30	31	1.92
3402169--3402308	62	2.3	60	80	14	169	27	12	27	32	1.93
3404599--3404624	13	2.0	13	100	0	52	38	7	7	46	1.61
3404612--3404647	18	1.9	19	88	5	56	41	11	8	38	1.71

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