genome.fa.s6550.2.7.7.80.10.50.1000.8.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: VEPZ01006550.1 Hibiscus syriacus cultivar Beakdansim tig00016004_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1576944

Tables:   1   2   3   4   5   6   7   8   

This is table  8  of  8  ( 954 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)
1331355--1331435	31	2.6	31	88	0	117	14	46	23	14	1.82
1331351--1331419	18	4.1	18	71	17	76	17	47	21	13	1.81
1332729--1332763	18	1.9	18	88	0	52	54	0	17	28	1.43
1336554--1336590	13	2.8	13	87	0	56	18	45	21	13	1.84
1336536--1336616	31	2.6	31	90	0	126	16	46	22	14	1.83
1336532--1336600	18	4.1	18	75	17	85	18	47	20	13	1.81
1342362--1342495	21	6.4	21	100	0	268	17	38	23	19	1.93
1344739--1344769	2	15.5	2	100	0	62	48	0	0	51	1.00
1356988--1357024	19	1.9	19	88	0	56	10	45	24	18	1.81
1357857--1357922	27	2.4	27	94	0	114	43	7	25	22	1.79
1362511--1362572	24	2.6	24	75	10	63	48	14	12	24	1.79
1374357--1374401	18	2.5	18	100	0	90	40	4	24	31	1.75
1375768--1375859	28	3.3	28	95	0	166	36	8	15	39	1.78
1375833--1375890	18	3.1	18	79	13	71	31	10	10	48	1.71
1375850--1375890	21	2.0	21	90	0	64	29	9	9	51	1.67
1375850--1375896	21	2.2	21	84	3	58	31	8	8	51	1.63
1376283--1376322	20	1.9	21	85	10	55	37	37	10	15	1.80
1391632--1391824	89	2.1	90	86	5	273	24	24	23	26	2.00
1400946--1401141	89	2.2	90	88	2	295	21	25	26	26	1.99
1402063--1402105	15	2.9	14	83	16	52	46	13	16	23	1.83
1402838--1403026	29	6.6	29	77	9	156	47	15	4	32	1.65
1409287--1409329	15	2.9	14	83	16	52	46	13	16	23	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1410074--1410148	29	2.6	28	78	4	78	48	14	4	33	1.63
1410180--1410236	30	1.9	30	85	0	78	49	8	8	33	1.65
1413010--1413050	20	2.0	20	100	0	82	46	14	9	29	1.77
1417637--1417704	24	2.8	24	81	0	82	52	16	10	20	1.72
1423752--1423824	36	2.0	36	89	5	112	30	19	6	43	1.76
1426384--1426454	24	3.0	24	80	0	88	53	16	11	18	1.72
1426416--1426455	12	3.3	12	78	0	53	47	20	17	15	1.83
1427784--1427859	13	5.3	13	77	17	71	15	44	22	17	1.86
1427762--1427838	18	4.6	18	81	15	110	16	50	20	11	1.76
1427766--1427844	31	2.5	31	95	0	149	16	48	21	13	1.81
1427820--1427866	8	6.5	8	77	22	59	14	38	25	21	1.92
1427836--1427867	7	4.4	7	92	7	55	12	34	28	25	1.92
1427820--1427866	15	3.3	15	91	5	71	14	38	25	21	1.92
1429179--1429214	18	2.0	18	88	0	54	52	0	16	30	1.44
1430342--1430448	24	4.5	24	72	0	88	23	13	15	47	1.81
1432564--1432639	13	5.3	13	77	17	71	15	44	22	17	1.86
1432542--1432618	18	4.6	18	81	15	110	16	50	20	11	1.76
1432546--1432624	31	2.5	31	95	0	149	16	48	21	13	1.81
1432600--1432646	8	6.5	8	77	22	59	14	38	25	21	1.92
1432616--1432647	7	4.4	7	92	7	55	12	34	28	25	1.92
1432600--1432646	15	3.3	15	91	5	71	14	38	25	21	1.92
1433959--1433994	18	2.0	18	88	0	54	52	0	16	30	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1435122--1435228	24	4.5	24	72	0	88	23	13	15	47	1.81
1454903--1454959	24	2.3	24	87	3	78	19	7	12	61	1.53
1455106--1455182	32	2.4	31	85	6	100	10	22	33	33	1.88
1455128--1455191	32	2.0	32	81	6	76	14	25	31	29	1.94
1457437--1457493	17	3.3	18	78	11	57	24	26	24	24	2.00
1459587--1459712	24	5.2	24	81	0	135	19	7	19	53	1.67
1459587--1459712	48	2.6	48	83	0	153	19	7	19	53	1.67
1461218--1461293	32	2.4	32	100	0	152	19	36	5	38	1.75
1464745--1464787	22	2.0	22	95	0	77	11	23	46	18	1.82
1464757--1464815	19	3.2	19	92	4	95	13	25	44	16	1.85
1464816--1464865	20	2.4	22	80	12	61	34	24	24	18	1.96
1464836--1464874	21	1.9	21	89	5	62	33	23	25	17	1.96
1472051--1472103	5	9.8	5	76	15	52	7	22	50	18	1.72
1472044--1472138	17	5.3	17	86	12	127	13	23	45	17	1.84
1472024--1472054	7	4.4	7	100	0	62	25	29	29	16	1.96
1472037--1472103	22	3.0	22	93	4	107	11	23	46	17	1.82
1472044--1472120	39	2.0	39	97	0	145	11	23	46	18	1.81
1472050--1472120	22	3.5	21	80	20	96	9	23	47	18	1.78
1472134--1472212	19	4.2	18	75	16	79	27	29	27	15	1.96
1473742--1473896	24	6.5	24	81	3	177	23	9	14	51	1.72
1473742--1473844	12	8.6	12	71	8	68	21	11	14	52	1.73
1480310--1480384	32	2.4	31	84	4	96	16	20	28	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1483480--1483532	24	2.2	24	96	0	97	22	39	22	15	1.91
1483534--1483578	16	2.8	16	80	10	56	24	15	22	37	1.93
1484332--1484406	32	2.4	32	84	2	89	14	21	30	33	1.93
1488796--1488849	12	4.5	12	78	0	54	12	16	11	59	1.61
1488791--1488850	24	2.5	24	86	0	75	13	18	10	58	1.62
1494746--1494791	24	1.9	24	90	0	74	19	30	21	28	1.98
1494781--1494824	16	2.8	16	85	0	70	25	13	25	36	1.92
1502918--1502951	12	2.8	12	95	0	59	23	11	20	44	1.84
1509435--1509480	19	2.4	19	88	0	74	13	13	15	58	1.63
1513230--1513278	19	2.6	19	80	0	53	14	12	16	57	1.66
1513227--1513290	19	3.4	19	72	12	51	14	14	15	56	1.68
1513432--1513507	32	2.4	33	84	8	104	11	21	30	36	1.89
1514031--1514214	92	2.0	92	84	4	237	28	11	15	44	1.82
1518573--1518657	24	3.5	24	86	0	89	47	16	14	22	1.82
1529815--1529860	8	5.4	8	82	12	56	82	0	17	0	0.67
1529815--1529861	17	2.7	17	90	3	67	82	0	17	0	0.66
1531976--1532201	114	2.0	114	92	1	382	33	15	21	30	1.94
1534259--1534456	54	3.8	54	81	8	214	39	15	22	23	1.91
1534830--1534884	22	2.5	22	87	0	83	34	14	14	36	1.87
1535238--1536571	113	11.8	113	95	1	2320	39	14	17	28	1.89
1536514--1536607	40	2.4	40	94	1	163	47	8	23	20	1.77
1536548--1536894	124	2.8	123	84	6	420	40	14	19	25	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1536795--1536853	17	3.4	17	68	25	50	47	11	25	15	1.79
1537090--1537172	9	8.5	10	84	12	79	32	0	1	66	1.00
1537102--1537173	3	24.0	3	86	10	103	34	0	1	63	1.03
1538301--1538348	14	3.3	15	77	19	57	31	0	0	68	0.90
1538355--1538400	3	15.3	3	78	17	51	26	6	0	67	1.15
1538355--1538403	19	2.5	19	75	15	55	26	6	0	67	1.14
1538401--1538435	16	2.2	16	90	10	54	60	0	0	40	0.97
1538595--1538636	20	2.2	19	86	4	57	33	0	2	64	1.07
1540512--1540570	29	2.1	29	81	6	68	37	1	11	49	1.50
1542887--1542945	29	2.1	29	81	6	68	37	1	11	49	1.50
1546685--1546809	29	4.4	29	70	13	98	43	22	4	29	1.74
1546715--1546895	29	6.3	29	76	10	129	41	23	7	27	1.81
1546696--1546853	85	1.9	85	86	5	230	41	20	6	31	1.77
1546903--1546949	18	2.7	18	90	3	69	17	23	42	17	1.88
1554031--1554165	29	4.8	29	76	12	118	40	21	5	32	1.75
1554048--1554175	55	2.3	57	81	6	145	41	21	6	31	1.77
1554055--1554208	29	5.4	29	74	9	129	40	22	7	28	1.82
1554216--1554262	18	2.7	18	96	3	87	12	23	46	17	1.82
1555065--1555123	29	2.1	29	81	6	68	37	1	11	49	1.50
1557428--1557486	29	2.1	29	81	6	68	38	1	10	49	1.47
1560533--1561656	560	2.0	560	96	0	2088	33	15	13	37	1.87
1565125--1565183	29	2.1	29	81	6	68	37	1	11	49	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1569875--1569933	29	2.1	29	81	6	68	37	1	11	49	1.50
1572292--1572347	13	4.5	13	80	13	73	16	50	21	12	1.78
1572324--1572357	17	1.9	18	94	5	61	17	41	23	17	1.90
1572365--1572446	29	2.8	29	92	0	137	21	8	24	45	1.80

Tables:   1   2   3   4   5   6   7   8

The End!