genome.fa.s8926.2.7.7.80.10.50.1000.17.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: VEPZ01008926.1 Hibiscus syriacus cultivar Beakdansim tig00112231_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4069050

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   

This is table  17  of  20  ( 2371 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)
3310416--3310514	47	2.1	47	80	9	105	27	18	1	53	1.51
3313642--3313996	177	2.0	177	100	0	710	29	21	14	34	1.92
3314278--3314307	13	2.3	13	94	0	51	50	0	6	43	1.28
3315437--3315506	10	7.2	10	81	12	92	62	0	37	0	0.95
3316172--3316218	19	2.5	19	86	10	62	46	0	4	48	1.21
3317193--3317276	5	16.8	5	98	0	159	41	0	17	40	1.50
3318793--3318976	73	2.5	73	96	0	334	25	21	29	23	1.99
3323019--3323055	15	2.4	16	82	8	51	62	0	5	32	1.18
3323242--3323307	2	35.0	2	88	11	104	51	0	0	48	1.00
3323228--3323310	15	5.4	15	87	8	114	54	0	0	45	0.99
3323769--3323844	36	2.1	37	90	7	120	28	15	14	40	1.87
3324299--3324819	109	4.9	105	81	7	502	22	19	25	32	1.97
3325399--3325557	67	2.4	67	87	4	223	35	11	21	32	1.89
3325499--3325585	36	2.4	36	84	3	104	40	12	20	26	1.88
3325600--3326010	37	11.9	37	66	19	235	37	13	20	28	1.91
3325499--3325992	102	4.9	102	94	0	819	37	12	20	29	1.90
3325906--3326010	36	2.9	36	88	1	147	39	13	22	24	1.90
3327509--3327564	16	3.6	16	72	13	53	0	16	7	76	0.99
3327516--3327558	22	2.0	23	86	9	63	0	20	4	74	1.00
3331033--3331075	15	2.7	15	85	7	59	62	0	0	37	0.95
3331541--3331616	36	2.1	37	87	7	111	30	14	14	40	1.86
3331516--3331616	37	2.8	36	83	6	114	32	13	13	39	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3336682--3336865	73	2.5	73	88	3	271	27	21	27	23	1.99
3336828--3336867	21	1.9	21	94	0	71	15	30	40	15	1.87
3337221--3337578	131	2.7	131	84	5	463	38	16	10	34	1.83
3339637--3339686	3	17.0	3	95	4	93	66	0	0	34	0.92
3352207--3352247	21	2.0	21	85	9	57	34	7	43	14	1.73
3352813--3352876	33	1.9	33	87	3	92	57	3	4	34	1.35
3353278--3353366	20	4.7	20	67	23	66	55	2	4	38	1.33
3355107--3355268	64	2.5	63	82	4	200	30	15	23	30	1.95
3363745--3363923	64	2.8	63	83	5	207	27	19	22	29	1.98
3367219--3367243	8	3.1	8	100	0	50	36	12	12	40	1.79
3367753--3367826	31	2.4	31	79	0	85	25	22	12	39	1.89
3369717--3369784	31	2.2	31	94	0	118	32	17	29	20	1.96
3371475--3371567	21	4.6	20	78	4	96	38	18	24	18	1.92
3371472--3371585	41	2.8	41	93	4	185	42	17	21	18	1.90
3371475--3371567	20	4.6	20	78	4	96	38	18	24	18	1.92
3371578--3371629	20	2.6	20	93	0	86	26	28	19	25	1.98
3372171--3372215	19	2.4	19	92	0	72	46	26	17	8	1.78
3372270--3372333	20	3.2	20	88	2	85	15	21	23	39	1.92
3372211--3372342	19	7.1	19	78	11	121	12	22	20	43	1.86
3374401--3374467	21	3.2	21	66	6	55	23	35	20	19	1.95
3374345--3374467	42	2.9	42	80	4	106	22	36	17	23	1.94
3375824--3375859	14	2.6	14	95	0	63	30	0	25	44	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3376022--3376181	33	4.8	33	91	3	268	14	23	19	43	1.87
3376109--3376163	14	3.6	14	73	21	56	10	23	20	45	1.82
3378474--3378498	12	2.1	12	100	0	50	0	28	0	72	0.86
3378670--3378723	24	2.2	24	90	0	81	38	20	16	24	1.92
3379783--3379840	20	2.9	20	92	0	89	37	20	22	18	1.94
3379859--3379983	19	6.8	19	93	6	215	14	21	16	47	1.82
3379859--3380012	57	2.9	52	86	9	227	14	22	18	44	1.85
3380100--3380137	14	2.7	15	84	12	53	47	18	0	34	1.49
3382000--3382055	20	2.9	19	86	5	85	35	23	25	16	1.94
3382055--3382112	14	3.9	14	77	16	62	50	25	15	8	1.73
3382039--3382117	32	2.4	33	93	2	133	48	24	17	10	1.78
3382124--3382219	19	5.6	17	72	21	78	11	19	22	45	1.82
3382146--3382203	14	3.9	14	79	16	71	8	17	25	48	1.75
3382129--3382219	32	2.8	33	94	3	166	10	18	23	47	1.80
3382204--3382258	20	2.8	19	83	8	65	16	23	23	36	1.94
3382731--3382775	18	2.5	18	85	0	63	15	15	42	26	1.87
3384095--3384132	20	1.9	20	88	0	58	50	21	15	13	1.78
3384395--3384438	22	2.0	22	95	0	79	18	15	45	20	1.85
3384626--3384719	20	4.7	20	80	2	89	23	18	24	34	1.96
3384606--3384720	20	5.7	20	78	5	88	23	17	23	35	1.95
3384648--3384782	41	3.3	41	81	4	130	20	21	20	37	1.94
3384709--3384801	20	4.6	20	78	4	96	18	24	18	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3384709--3384804	41	2.3	41	98	0	183	18	23	17	39	1.92
3387753--3387819	35	1.9	35	84	6	91	61	7	10	20	1.53
3391336--3391441	12	9.3	12	72	12	71	61	3	0	33	1.20
3391335--3391424	9	9.0	9	70	22	56	56	4	1	37	1.27
3391336--3391426	21	4.3	21	94	2	148	58	4	1	36	1.25
3391687--3391763	39	2.0	39	94	0	136	19	24	9	46	1.79
3391685--3391756	22	3.5	22	67	18	64	16	25	8	50	1.73
3391833--3392406	124	4.7	124	90	4	850	25	19	14	39	1.90
3392201--3392502	114	2.7	114	91	2	482	29	18	12	40	1.87
3394254--3394427	75	2.3	75	91	2	269	30	23	17	28	1.97
3404079--3404168	3	30.0	3	75	4	74	62	1	1	35	1.10
3404079--3404168	30	3.0	30	80	3	92	62	1	1	35	1.10
3406843--3406873	16	1.9	16	100	0	62	58	3	6	32	1.40
3409149--3409317	91	1.8	93	89	2	270	23	24	26	24	2.00
3409227--3409712	130	3.7	128	88	4	652	24	19	30	25	1.98
3409326--3409660	40	7.9	42	71	13	188	26	17	30	25	1.97
3409391--3409718	46	7.5	44	72	14	207	25	18	30	25	1.98
3409751--3409819	28	2.4	28	88	7	95	44	14	11	28	1.80
3410123--3410166	15	2.9	15	93	0	70	43	4	20	31	1.72
3410260--3410339	40	2.0	40	90	4	126	37	11	21	30	1.88
3410321--3410444	63	2.0	63	88	1	187	43	11	14	30	1.80
3410343--3410566	121	1.9	118	80	8	265	41	12	14	30	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3410625--3410777	67	2.3	66	83	5	193	45	13	13	28	1.80
3410722--3410790	30	2.3	30	87	7	106	36	15	10	37	1.82
3411142--3411245	36	3.0	36	80	4	115	36	11	18	33	1.87
3411143--3411261	36	3.4	34	76	9	105	36	12	19	31	1.89
3411213--3411445	105	2.3	101	83	8	274	36	12	20	30	1.89
3411604--3411721	36	3.3	35	83	9	157	36	12	16	33	1.87
3411696--3411827	53	2.5	53	97	1	246	41	10	13	34	1.79
3412122--3412157	18	1.9	19	88	5	56	27	2	19	50	1.62
3412120--3412161	22	2.0	21	90	4	66	28	2	19	50	1.60
3413940--3414010	20	3.0	24	69	22	78	40	11	23	23	1.87
3413927--3414001	20	3.5	20	70	20	62	37	10	25	26	1.89
3413937--3414016	26	3.3	26	68	20	82	42	10	23	23	1.84
3413925--3414018	46	2.1	45	91	2	152	38	9	25	26	1.87
3416452--3416513	32	2.0	32	96	3	117	61	9	14	14	1.57
3417574--3417604	16	1.9	16	100	0	62	58	3	6	32	1.40
3421033--3421057	13	1.9	13	100	0	50	16	4	16	64	1.44
3428956--3429038	43	1.9	43	85	0	112	28	16	24	30	1.97
3430153--3430202	24	2.1	24	96	0	91	0	22	44	34	1.53
3431879--3431972	21	4.5	22	81	10	99	36	18	20	25	1.95
3432887--3433100	107	2.0	107	100	0	428	39	19	13	28	1.89
3434767--3435240	235	2.0	235	97	0	894	34	16	12	35	1.87
3438582--3438621	19	2.1	19	85	0	53	55	7	2	35	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3439148--3439194	6	7.8	6	100	0	94	0	65	0	34	0.93
3442030--3442061	16	2.0	16	93	0	55	18	0	3	78	0.89
3442031--3442122	25	3.8	23	79	15	89	20	1	5	72	1.10
3442022--3442122	24	4.2	23	80	8	105	20	0	6	71	1.15
3443779--3443836	29	1.9	29	89	6	89	18	20	8	51	1.72
3447915--3448237	109	3.0	110	85	5	442	30	9	18	40	1.83
3447939--3448231	54	5.5	53	73	15	169	29	10	18	41	1.83
3448444--3448612	38	4.4	39	88	3	243	32	17	15	33	1.92
3448444--3448617	79	2.2	76	88	3	249	32	17	15	35	1.91
3449181--3449211	2	15.5	2	100	0	62	48	0	0	51	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20