genome.fa.s7999.2.7.7.80.10.50.1000.13.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: VEPZ01007999.1 Hibiscus syriacus cultivar Beakdansim tig00110450_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11700749

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   

This is table  13  of  50  ( 5918 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)
3316597--3316623	3	9.0	3	100	0	54	0	0	33	66	0.92
3319490--3319524	17	2.1	17	100	0	70	28	5	22	42	1.76
3321382--3321418	17	2.2	17	95	0	65	18	10	18	51	1.75
3325357--3325441	32	2.7	32	85	8	104	22	9	25	42	1.83
3325670--3325795	16	7.9	16	69	7	58	12	10	26	50	1.73
3330354--3330406	20	2.7	20	93	0	88	24	16	24	33	1.96
3331309--3331356	20	2.4	20	82	0	60	29	22	18	29	1.98
3332075--3332104	12	2.5	12	94	0	51	26	16	3	53	1.59
3339937--3339983	19	2.4	19	78	3	58	29	14	36	19	1.92
3340355--3340595	109	2.2	110	85	0	322	31	19	15	34	1.93
3340293--3340595	55	5.5	55	81	2	324	30	17	16	34	1.93
3340575--3340616	21	2.0	21	100	0	84	23	14	28	33	1.94
3341091--3341129	20	2.0	20	89	0	60	33	10	23	33	1.88
3344715--3344753	2	19.5	2	100	0	78	51	0	0	48	1.00
3345730--3345781	22	2.4	22	83	0	68	23	17	25	34	1.96
3345830--3345880	18	2.7	20	79	17	63	19	27	21	31	1.97
3350633--3350831	95	2.1	94	85	2	267	40	13	21	24	1.89
3351252--3351577	45	7.2	45	84	3	413	41	12	20	25	1.87
3357868--3357907	17	2.4	17	86	0	53	32	15	12	40	1.84
3357961--3358008	18	2.7	18	86	0	69	33	6	10	50	1.62
3376188--3376286	13	7.4	13	67	20	53	74	1	16	8	1.10
3376188--3376292	57	1.9	54	83	13	133	74	0	16	8	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3376239--3376291	20	2.8	18	78	10	61	77	0	15	7	0.98
3376226--3376297	18	3.8	18	74	15	58	73	0	19	6	1.05
3377540--3377978	133	3.3	133	83	5	478	32	23	14	29	1.94
3378157--3378204	3	16.3	3	95	4	89	31	0	0	68	0.90
3378741--3378801	1	61.0	1	76	0	59	88	1	9	0	0.58
3378740--3378797	19	2.9	20	85	14	84	86	1	12	0	0.65
3378732--3378801	18	3.8	18	82	14	88	85	1	11	1	0.72
3380129--3380158	15	2.0	15	93	0	51	43	0	0	56	0.99
3391694--3391719	13	2.0	13	100	0	52	23	15	15	46	1.83
3391887--3391954	35	1.9	35	93	0	118	38	13	13	35	1.83
3395305--3395378	20	3.6	20	72	5	67	35	16	16	32	1.91
3395304--3395378	21	3.6	21	74	3	80	34	16	16	33	1.90
3398028--3398055	2	14.0	2	100	0	56	50	0	0	50	1.00
3401962--3402001	21	2.0	20	85	5	53	50	10	15	25	1.74
3405698--3405745	19	2.6	19	83	3	62	29	16	22	31	1.96
3416491--3416544	21	2.6	21	93	0	90	40	12	18	27	1.87
3417711--3417835	32	4.0	32	88	3	173	38	12	19	30	1.88
3417711--3417829	63	1.9	63	89	3	186	38	12	17	31	1.87
3423163--3423290	42	3.0	42	84	5	170	32	5	21	41	1.76
3426922--3427002	22	3.7	22	80	3	92	35	23	19	20	1.96
3437128--3437165	20	2.0	20	89	5	60	34	0	23	42	1.55
3438419--3438450	2	16.0	2	100	0	64	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)
3440302--3441140	431	1.9	434	97	1	1596	39	17	10	31	1.85
3446958--3446992	11	3.2	11	87	0	52	40	8	20	31	1.82
3447979--3448052	38	2.0	36	82	7	87	48	4	1	45	1.29
3456566--3456634	20	3.5	20	80	7	86	36	27	10	26	1.88
3457471--3457525	28	2.0	28	88	0	83	23	3	27	45	1.69
3462604--3462764	86	1.9	87	90	5	263	44	6	9	39	1.63
3463549--3463580	2	16.0	2	100	0	64	50	0	0	50	1.00
3483741--3483804	20	3.2	20	86	0	83	23	14	28	34	1.93
3495077--3495128	21	2.5	21	90	0	77	23	9	19	48	1.78
3504540--3504615	32	2.4	31	86	4	107	32	32	22	11	1.90
3504758--3504815	24	2.4	24	82	5	73	55	13	17	13	1.70
3506291--3506328	20	1.9	20	89	10	60	52	13	5	28	1.61
3519689--3519746	20	2.8	20	84	5	62	37	22	15	24	1.93
3521027--3521085	26	2.3	26	100	0	118	49	0	3	47	1.18
3521171--3521220	2	25.0	2	100	0	100	50	0	0	50	1.00
3521405--3521482	2	39.0	2	100	0	156	50	0	0	50	1.00
3522596--3522664	32	2.2	32	86	0	93	15	33	24	26	1.95
3525905--3525933	15	1.9	15	100	0	58	27	13	6	51	1.66
3527949--3528014	16	3.9	16	70	22	55	75	3	7	13	1.13
3528144--3528187	19	2.4	18	92	7	79	70	0	9	20	1.14
3528978--3529589	270	2.3	269	86	3	865	26	16	21	35	1.95
3529563--3529785	123	1.8	123	89	1	349	25	13	21	39	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3533021--3533049	6	4.8	6	100	0	58	68	0	0	31	0.89
3533385--3533436	12	4.6	12	79	11	56	71	1	9	17	1.22
3533458--3533487	13	2.3	13	94	0	51	40	0	23	36	1.55
3533485--3533531	18	2.6	18	90	6	69	68	0	4	27	1.08
3537121--3537152	12	2.7	12	90	0	55	62	6	0	31	1.20
3541411--3541453	22	2.0	21	90	4	68	39	23	11	25	1.88
3550231--3550272	21	2.0	22	85	4	59	40	0	7	52	1.29
3551139--3551199	28	2.1	30	84	6	81	29	3	1	65	1.18
3555417--3555453	17	2.2	17	90	0	56	18	10	10	59	1.59
3555669--3555703	14	2.5	13	90	9	52	40	0	0	60	0.97
3556861--3556903	21	2.0	21	86	0	59	34	0	6	58	1.25
3590115--3590182	20	3.4	20	69	15	68	33	14	17	33	1.91
3590109--3590202	40	2.3	40	98	0	179	38	14	17	29	1.89
3590135--3590204	20	3.5	20	72	14	72	38	15	15	30	1.89
3591587--3591630	3	14.7	3	90	0	70	4	34	0	61	1.16
3618506--3618793	145	2.0	145	100	0	576	34	6	25	32	1.83
3622033--3622402	116	3.2	116	84	1	481	27	15	19	38	1.92
3623481--3623841	54	6.7	54	78	5	304	27	18	22	32	1.97
3640177--3640217	22	1.9	22	85	5	57	9	17	9	63	1.51
3642611--3642639	5	5.8	5	100	0	58	37	0	20	41	1.53
3644435--3644461	14	1.9	14	100	0	54	14	11	14	59	1.62
3644416--3644461	24	1.9	24	86	8	67	13	10	15	60	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3648241--3648282	22	1.9	22	85	9	59	23	0	4	71	1.05
3648248--3648297	17	2.9	17	77	19	50	20	4	6	70	1.25
3651827--3651853	13	2.1	13	100	0	54	40	44	7	7	1.60
3663182--3663216	18	1.9	18	100	0	70	48	11	0	40	1.39
3666327--3666367	12	3.5	11	87	9	55	14	0	2	82	0.76
3666330--3666371	17	2.5	17	82	17	52	14	0	2	83	0.75
3668492--3668516	7	3.6	7	100	0	50	40	0	32	28	1.57
3671292--3671359	26	2.6	26	83	2	73	70	2	23	2	1.15
3671310--3671416	29	3.7	28	69	19	85	71	1	26	0	1.03
3671318--3671418	21	4.8	20	68	17	53	71	1	25	0	1.03
3671313--3671416	16	5.9	18	74	17	71	70	1	26	0	1.04
3673649--3673759	42	2.7	41	77	6	125	26	21	18	33	1.97
3673954--3674065	59	1.9	59	83	0	143	27	27	15	29	1.96
3674197--3674343	59	2.5	59	85	4	190	31	25	14	27	1.95
3674360--3674514	39	4.0	39	96	0	265	31	16	19	32	1.94
3674551--3674694	59	2.4	58	87	4	191	27	22	18	31	1.97
3676214--3676278	13	5.0	13	76	10	62	12	3	6	78	1.05
3677043--3677094	20	2.6	20	93	0	95	25	19	23	32	1.97
3679045--3679092	19	2.5	19	83	16	55	52	4	10	33	1.55
3680434--3680517	40	2.1	40	84	4	107	30	13	17	38	1.88
3680834--3680877	18	2.4	18	88	0	61	15	6	36	40	1.74
3687237--3687280	18	2.4	18	84	0	52	18	6	34	40	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3687949--3687978	12	2.5	12	94	0	51	33	30	10	26	1.89
3691118--3691230	57	2.0	57	87	0	163	30	7	16	45	1.74
3692307--3692379	32	2.3	31	92	2	119	15	8	28	47	1.73
3692429--3692521	32	2.9	32	71	6	89	21	13	30	34	1.92
3692973--3693207	130	1.8	130	91	2	382	34	10	5	49	1.61
3693278--3693378	33	3.1	32	78	5	105	24	10	16	47	1.79
3693379--3693462	16	5.2	16	73	0	78	10	14	28	46	1.78
3693343--3693462	32	3.8	32	83	2	134	15	13	24	47	1.80
3693201--3693462	64	4.1	64	75	6	208	17	12	23	45	1.83
3699399--3699433	4	8.8	4	87	0	52	71	0	2	25	1.00

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