genome.fa.s9625.2.7.7.80.10.50.1000.22.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: VEPZ01009625.1 Hibiscus syriacus cultivar Beakdansim tig00117017_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6938204

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   

This is table  22  of  25  ( 2922 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)
6243269--6243340	35	2.0	36	89	2	110	27	19	8	44	1.79
6245786--6245859	37	2.0	37	94	0	130	32	21	6	39	1.80
6247186--6247233	21	2.3	21	92	0	78	25	16	18	39	1.91
6249811--6249861	21	2.4	21	90	0	75	27	17	13	41	1.87
6251434--6251460	14	1.9	14	100	0	54	44	0	33	22	1.53
6251653--6251699	21	2.4	19	80	16	51	46	10	0	42	1.38
6252609--6252641	16	2.1	16	88	11	50	66	12	6	15	1.42
6253834--6253867	14	2.4	14	100	0	68	50	14	14	20	1.78
6257332--6257376	18	2.4	19	88	3	65	64	4	2	28	1.25
6261709--6261779	24	3.0	24	70	0	61	22	9	15	52	1.72
6263775--6263879	50	2.1	50	100	0	210	33	14	13	39	1.85
6265923--6266779	429	2.0	425	95	1	1554	40	14	14	30	1.86
6268889--6268926	19	2.0	19	100	0	76	21	21	10	47	1.80
6268892--6268934	19	2.3	19	88	4	61	25	23	6	44	1.78
6273259--6273364	27	3.9	27	83	2	140	29	15	11	44	1.81
6273259--6273364	55	1.9	54	90	1	167	29	15	11	44	1.81
6273969--6274015	22	2.0	24	84	8	62	34	25	25	14	1.94
6274018--6274055	19	2.0	20	85	15	53	39	13	23	23	1.90
6276269--6276409	35	4.0	35	71	7	106	34	19	19	26	1.96
6277468--6277572	27	3.9	26	78	5	102	31	14	12	41	1.82
6280095--6280152	24	2.5	22	78	15	62	25	3	3	67	1.22
6281049--6281119	30	2.6	26	77	14	72	33	2	1	61	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6286789--6286845	15	3.7	15	90	2	87	56	12	21	10	1.65
6290749--6290843	39	2.4	39	80	13	99	53	10	35	0	1.35
6291348--6291373	12	2.2	12	100	0	52	15	7	7	69	1.35
6291856--6291890	17	2.1	17	89	10	54	42	25	2	28	1.69
6292764--6292842	2	40.0	2	84	2	106	44	1	0	54	1.08
6292914--6293164	85	3.0	85	89	2	353	32	15	20	31	1.94
6292917--6293197	85	3.3	85	86	4	327	32	16	19	30	1.94
6301164--6301215	19	2.6	19	81	9	59	34	11	13	40	1.81
6301853--6302199	45	7.7	45	92	0	550	24	23	19	32	1.97
6302353--6302393	3	14.0	3	85	14	59	36	0	0	63	0.95
6333960--6334074	39	2.9	39	78	7	126	45	14	3	36	1.62
6334411--6334647	58	4.1	58	87	1	323	40	11	9	38	1.73
6344049--6344331	45	6.3	44	84	3	291	38	17	9	34	1.83
6345803--6345874	31	2.3	31	76	9	74	47	1	6	44	1.38
6345909--6345972	24	2.6	24	80	5	65	51	3	1	43	1.26
6345978--6346042	30	2.2	30	88	0	94	66	3	4	26	1.26
6348202--6348240	16	2.5	15	84	12	51	2	7	5	84	0.84
6348878--6348929	3	17.0	3	88	11	79	65	0	0	34	0.93
6349247--6349348	42	2.5	41	80	3	123	31	22	20	25	1.98
6349179--6350499	258	5.1	258	86	2	1812	33	17	15	32	1.92
6349747--6349860	42	2.8	41	82	2	138	32	21	21	25	1.98
6349179--6350499	517	2.6	512	88	1	1921	33	17	15	32	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6359480--6359537	3	19.3	3	82	7	73	72	0	0	27	0.85
6359471--6359538	13	5.3	13	77	15	54	73	0	1	25	0.92
6360960--6361072	22	5.5	22	79	7	105	36	27	10	25	1.89
6361016--6361099	22	3.9	22	83	7	102	33	27	10	28	1.90
6361150--6361198	22	2.2	22	96	0	89	26	32	16	24	1.96
6361085--6361270	87	2.2	85	89	2	275	35	23	14	26	1.93
6361530--6361617	20	4.4	20	77	7	81	26	11	27	35	1.90
6363319--6363348	2	15.0	2	100	0	60	50	0	0	50	1.00
6378236--6378288	10	5.5	10	75	8	56	16	22	33	26	1.96
6378225--6378290	10	6.9	9	73	11	51	16	24	31	27	1.96
6378239--6378290	19	2.7	19	91	5	79	17	26	34	21	1.95
6378284--6378341	17	3.4	17	97	0	107	17	41	24	17	1.90
6378331--6378373	7	6.4	7	89	10	72	16	30	30	23	1.96
6378331--6378369	13	3.0	13	100	0	78	15	30	30	23	1.95
6378331--6378373	20	2.2	20	91	8	70	16	30	30	23	1.96
6385124--6385230	10	11.1	10	73	11	98	18	24	31	25	1.98
6385142--6385232	19	4.8	19	91	4	139	17	26	32	23	1.96
6385124--6385232	38	2.8	38	87	4	148	18	25	31	24	1.98
6385226--6385283	17	3.4	17	97	0	107	17	41	24	17	1.90
6385273--6385322	7	7.4	7	86	8	77	18	30	30	22	1.97
6385273--6385318	13	3.5	13	93	3	74	17	30	30	21	1.96
6385273--6385322	20	2.5	20	93	6	84	18	30	30	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6391407--6391450	22	2.0	22	90	0	70	25	25	15	34	1.95
6391360--6391522	87	1.9	87	87	2	238	34	22	14	28	1.93
6391793--6391876	20	4.2	20	75	13	75	27	10	28	33	1.90
6393371--6393396	2	13.0	2	100	0	52	50	0	0	50	1.00
6397685--6397738	27	2.0	27	92	0	90	24	9	25	40	1.85
6400024--6400065	17	2.5	18	85	11	54	2	26	0	71	0.98
6424122--6424177	18	3.1	18	71	5	51	42	5	3	48	1.43
6424887--6424944	29	2.0	30	82	3	73	39	8	17	34	1.80
6429950--6430022	20	3.7	19	74	5	56	35	12	16	35	1.86
6432344--6432446	53	1.9	53	96	0	188	35	13	11	38	1.81
6436120--6436157	20	1.9	20	94	0	67	15	18	36	28	1.92
6440316--6440377	3	20.7	3	74	12	56	62	3	3	30	1.26
6440316--6440379	24	2.7	23	83	11	76	64	3	3	29	1.24
6440560--6441056	135	3.7	135	90	2	702	25	18	30	26	1.98
6441064--6441159	28	3.3	28	83	12	106	44	13	15	26	1.83
6441161--6441343	66	2.8	62	76	10	168	39	15	19	25	1.91
6441754--6441833	40	2.0	40	100	0	160	35	12	22	30	1.91
6441815--6441940	65	2.0	65	88	1	191	42	11	14	31	1.80
6442160--6442594	67	6.5	67	98	0	802	44	12	12	30	1.79
6442481--6442702	92	2.4	93	84	7	270	43	13	10	32	1.79
6442662--6442772	29	3.8	28	85	7	134	44	15	8	32	1.76
6443013--6443116	36	3.0	36	81	4	124	35	11	20	32	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6443014--6443132	36	3.4	36	79	6	111	36	12	21	30	1.90
6443084--6443316	105	2.3	101	83	10	269	36	12	19	30	1.89
6443787--6443860	4	19.0	4	91	5	125	24	1	25	48	1.59
6445041--6445089	24	2.0	26	84	15	68	2	18	4	75	1.06
6445709--6445779	20	3.0	24	69	22	78	40	11	23	23	1.87
6445696--6445770	20	3.5	20	70	20	62	37	10	25	26	1.89
6445706--6445785	26	3.3	26	68	20	82	42	10	23	23	1.84
6445694--6445787	46	2.1	45	91	2	152	38	9	25	26	1.87
6447190--6447251	32	2.0	32	96	3	117	61	9	14	14	1.57
6450641--6450702	3	20.7	3	74	12	56	62	3	3	30	1.26
6450641--6450704	24	2.7	23	83	11	76	64	3	3	29	1.24
6451939--6452008	2	35.0	2	100	0	140	50	0	0	50	1.00
6453735--6453781	13	3.6	13	91	0	76	29	17	17	36	1.92
6455440--6455490	2	26.5	2	92	7	88	50	0	0	49	1.00
6460062--6460254	85	2.3	85	84	5	239	32	20	17	29	1.95
6460274--6460302	2	14.5	2	100	0	58	48	0	0	51	1.00
6460511--6460539	10	2.9	10	100	0	58	58	0	10	31	1.31
6462001--6462056	27	2.1	27	96	0	103	26	14	21	37	1.92
6461967--6462258	146	2.0	146	100	0	584	36	17	15	30	1.92
6462147--6462202	27	2.1	27	96	0	103	26	14	21	37	1.92
6462523--6462603	38	2.1	38	100	0	162	45	16	14	23	1.84
6467952--6467977	3	8.7	3	100	0	52	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6468130--6468170	20	2.0	21	85	4	57	48	9	0	41	1.36
6470012--6470048	15	2.5	15	87	12	51	10	8	0	81	0.89
6470033--6470075	15	2.7	15	85	7	50	6	11	0	81	0.87
6481048--6481077	2	15.0	2	100	0	60	50	0	0	50	1.00
6481327--6481520	45	4.3	45	82	2	239	24	19	14	41	1.89
6481327--6481517	89	2.1	90	85	2	251	24	19	14	41	1.88
6482096--6482142	18	2.6	18	96	0	85	36	27	17	19	1.93
6484118--6484156	18	2.2	17	86	13	53	15	10	0	74	1.07
6484116--6484163	19	2.6	17	81	18	53	14	10	0	75	1.06
6499547--6499607	20	2.9	21	80	11	54	24	31	26	18	1.97

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