genome.fa.s2647.2.7.7.80.10.50.1000.14.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: VEPZ01002647.1 Hibiscus syriacus cultivar Beakdansim tig00005406_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7027529

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   

This is table  14  of  26  ( 3011 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)
3327415--3327507	35	2.7	35	77	3	98	31	11	24	32	1.91
3327685--3327741	29	2.0	29	82	6	71	42	3	17	36	1.67
3328498--3328850	54	6.6	54	89	0	492	33	21	17	27	1.96
3328499--3328850	161	2.2	162	89	2	528	33	21	17	27	1.96
3329221--3329272	20	2.6	21	84	6	72	19	26	17	36	1.94
3334089--3334258	84	2.0	84	86	0	232	27	21	22	28	1.99
3335020--3335155	54	2.5	54	85	0	173	29	19	16	34	1.94
3335129--3335572	54	8.2	54	91	1	660	31	18	20	28	1.97
3335211--3335293	27	3.2	25	62	18	60	33	16	19	30	1.94
3335897--3335941	22	2.1	21	88	8	65	31	24	15	28	1.96
3338913--3338959	22	2.1	23	92	4	78	38	4	12	44	1.62
3339129--3339247	61	2.0	61	87	0	175	27	17	26	28	1.98
3343664--3343724	2	30.5	2	100	0	122	50	0	0	49	1.00
3343888--3343951	24	2.7	24	75	0	65	53	17	10	18	1.72
3352397--3352447	23	2.2	23	96	0	93	25	17	29	27	1.98
3355377--3355427	25	2.0	25	96	0	93	25	15	11	47	1.80
3371113--3371587	55	8.7	55	88	4	674	34	10	19	35	1.86
3372848--3372900	27	2.0	27	100	0	106	26	15	37	20	1.92
3377372--3377731	55	6.5	55	90	1	526	34	11	18	35	1.87
3381477--3381518	14	3.0	14	89	0	57	2	7	47	42	1.43
3381477--3381518	12	3.3	12	90	6	57	2	7	47	42	1.43
3381477--3381506	2	15.0	2	92	0	51	0	3	50	46	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3384023--3384157	58	2.3	58	88	5	193	34	11	19	34	1.87
3384032--3384179	58	2.6	58	86	6	158	34	11	20	33	1.88
3384380--3384665	68	4.2	67	87	5	396	30	13	25	30	1.94
3384379--3384669	135	2.1	136	89	1	451	30	13	25	30	1.94
3386419--3386703	68	4.2	68	86	1	405	28	15	25	30	1.96
3386681--3386722	19	2.2	19	86	0	57	23	19	23	33	1.97
3386710--3386744	17	2.0	18	88	5	54	34	11	25	28	1.91
3386718--3387029	81	3.9	81	78	9	330	39	9	22	28	1.86
3390725--3390882	58	2.7	58	86	3	194	37	10	18	33	1.85
3391083--3391407	68	4.8	68	85	0	416	32	13	24	30	1.93
3391357--3391812	81	5.6	81	86	1	612	37	12	22	27	1.90
3391357--3391819	243	1.9	242	88	0	701	37	12	22	27	1.90
3391817--3391895	29	2.7	29	82	0	95	48	7	22	21	1.75
3396369--3396531	58	2.8	61	83	10	207	35	11	19	33	1.87
3396735--3397020	68	4.2	68	85	3	362	29	14	24	31	1.95
3396733--3397024	135	2.2	136	87	3	419	29	14	25	31	1.94
3397094--3397137	20	2.3	19	84	4	52	36	0	6	56	1.26
3408995--3409053	30	2.0	30	83	6	75	38	6	18	35	1.78
3417233--3417287	27	2.0	27	85	0	74	23	1	18	56	1.51
3417776--3417827	27	1.9	27	92	0	86	28	0	11	59	1.32
3421946--3422209	45	5.9	45	91	3	383	40	17	18	22	1.91
3422103--3422179	26	3.2	26	63	30	71	44	16	18	20	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3428389--3428431	19	2.3	19	100	0	86	30	11	34	23	1.90
3428891--3429109	45	4.9	45	89	0	314	39	13	21	26	1.90
3430155--3431144	492	2.0	491	99	0	1953	44	13	9	33	1.75
3437629--3437673	12	3.7	12	80	13	56	51	0	2	46	1.13
3440183--3440240	30	1.9	30	100	0	116	31	5	18	44	1.72
3440423--3440462	21	1.9	21	94	0	71	27	25	27	20	1.99
3442235--3442514	140	2.0	140	100	0	560	33	20	14	32	1.92
3442444--3442855	218	1.9	219	84	0	547	31	20	17	30	1.96
3443312--3443354	2	21.5	2	100	0	86	51	0	0	48	1.00
3444759--3444787	5	6.0	5	92	8	51	20	0	0	79	0.74
3447985--3448049	26	2.5	26	89	0	103	41	20	7	30	1.80
3448811--3449091	83	3.4	82	89	1	411	44	8	4	42	1.54
3448769--3449091	166	2.0	161	85	4	441	44	8	4	42	1.55
3449301--3449409	20	5.4	20	88	0	137	19	12	23	44	1.85
3449301--3449462	40	4.1	40	78	8	145	19	14	23	42	1.88
3449301--3449462	60	2.7	60	82	7	188	19	14	23	42	1.88
3449415--3449461	20	2.3	20	96	0	85	19	19	25	36	1.95
3454458--3454527	23	3.0	23	95	0	122	24	22	17	35	1.95
3454561--3454622	22	2.8	22	100	0	124	24	25	25	24	2.00
3460655--3460679	4	6.2	4	100	0	50	24	0	0	76	0.80
3463888--3463935	21	2.3	21	92	0	78	50	12	14	22	1.77
3465779--3465981	36	5.8	36	80	9	177	27	18	12	41	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3465821--3465945	66	1.9	66	94	0	223	25	16	15	43	1.86
3465794--3466048	102	2.5	100	85	4	314	28	18	12	41	1.86
3465922--3466112	67	2.9	67	87	2	251	28	18	14	38	1.90
3466116--3466442	102	3.2	102	86	2	435	34	16	10	38	1.84
3466487--3466516	15	2.1	15	93	6	53	23	20	0	56	1.42
3468106--3468142	2	18.5	2	94	0	65	45	0	0	54	1.00
3468150--3468198	5	10.2	5	82	4	57	18	2	4	75	1.06
3472159--3472198	21	2.0	21	90	5	64	52	32	0	15	1.43
3472289--3472327	14	2.8	14	84	0	51	30	25	7	35	1.84
3472484--3472553	2	35.0	2	100	0	140	50	0	0	50	1.00
3472930--3472989	26	2.3	26	91	0	102	18	3	18	60	1.50
3482031--3482098	35	1.9	36	87	3	102	32	2	35	29	1.73
3485301--3485353	16	3.2	16	77	17	56	66	0	18	15	1.26
3485969--3486036	35	1.9	36	93	3	120	29	2	36	30	1.72
3493192--3493262	18	3.9	18	75	14	65	61	2	5	29	1.33
3495799--3495836	18	2.1	18	85	9	51	78	0	21	0	0.74
3496283--3496389	11	9.9	11	76	18	93	81	0	17	0	0.75
3496283--3496406	10	11.8	10	73	19	76	79	0	18	1	0.81
3496287--3496400	20	5.2	22	77	14	112	81	0	16	1	0.77
3496287--3496389	24	4.2	25	81	15	101	82	0	16	0	0.72
3496311--3496399	40	2.1	42	88	10	130	80	0	16	2	0.80
3496290--3496391	15	6.5	15	76	17	84	81	0	17	0	0.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3496287--3496379	1	93.0	1	71	0	51	83	0	16	0	0.64
3496285--3496409	26	4.7	26	72	19	91	80	0	18	1	0.80
3496283--3496373	23	4.0	22	78	12	58	82	0	17	0	0.67
3497936--3498069	51	2.6	52	84	3	191	38	19	19	22	1.93
3499461--3499633	64	2.7	63	86	1	229	38	17	12	32	1.86
3499599--3499792	55	3.7	54	78	9	211	41	18	13	26	1.87
3499586--3499791	103	2.0	103	92	0	340	41	18	13	26	1.88
3500132--3500786	137	4.8	137	88	3	930	34	24	16	25	1.96
3500133--3500786	271	2.4	271	87	4	928	34	24	16	25	1.96
3500947--3500990	3	14.7	3	95	0	79	31	0	2	65	1.05
3501653--3501682	14	2.1	14	100	0	60	30	13	13	43	1.82
3501694--3501724	10	3.1	10	100	0	62	58	0	32	9	1.31
3502183--3502216	17	1.9	18	94	5	61	67	0	2	29	1.05
3502322--3502385	27	2.4	27	100	0	128	25	15	0	59	1.36
3505853--3505883	12	2.6	12	94	0	53	16	41	6	35	1.74
3509564--3509924	189	1.9	189	88	0	542	31	25	18	24	1.98
3515444--3515469	13	2.0	13	100	0	52	69	0	0	30	0.89
3516178--3516280	49	2.1	49	94	1	181	41	11	15	31	1.83
3516790--3516864	21	3.6	21	98	1	143	20	25	17	37	1.94
3516790--3516887	21	4.7	22	91	3	82	22	25	16	35	1.94
3516860--3516947	40	2.2	40	87	4	124	26	22	15	35	1.94
3516858--3516927	20	3.5	20	73	11	72	25	22	17	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3516899--3516967	20	3.6	19	79	15	70	27	23	14	34	1.94
3517735--3517768	12	2.8	12	90	0	50	55	29	0	14	1.40
3518118--3518166	25	1.9	26	88	12	75	57	12	24	6	1.58
3520193--3520228	18	2.0	18	94	0	63	58	25	0	16	1.38
3520612--3520644	13	2.4	14	95	5	59	48	21	0	30	1.50
3521652--3521704	21	2.5	21	96	0	97	32	24	11	32	1.91
3522594--3522675	20	4.1	20	85	4	103	46	15	21	15	1.84
3522596--3522675	39	2.0	40	85	2	108	46	16	21	16	1.84
3522596--3522675	19	4.1	19	86	4	97	46	16	21	16	1.84
3526018--3526069	26	2.0	25	85	10	70	75	3	5	15	1.14

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