genome.fa.s8208.2.7.7.80.10.50.1000.5.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: VEPZ01008208.1 Hibiscus syriacus cultivar Beakdansim tig00110830_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2533913

Tables:   1   2   3   4   5   6   7   8   

This is table  5  of  8  ( 919 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)
1285956--1286573	45	13.7	45	89	0	903	22	21	20	36	1.95
1286760--1286809	3	16.7	3	83	8	57	34	0	4	62	1.14
1302774--1302812	21	1.9	20	89	5	60	33	20	17	28	1.96
1303284--1303357	30	2.5	30	82	4	96	41	8	17	32	1.79
1315126--1315693	81	7.0	81	81	5	567	30	20	11	36	1.88
1315126--1315693	162	3.5	161	81	3	649	30	20	11	36	1.88
1315126--1315693	243	2.3	241	83	3	694	30	20	11	36	1.88
1315643--1316509	68	12.8	68	83	3	996	29	22	14	33	1.94
1316716--1316821	55	1.9	56	90	7	171	33	20	9	35	1.85
1329820--1329935	56	2.1	57	86	4	164	35	9	19	35	1.85
1330129--1330389	68	3.8	68	88	3	382	30	14	24	29	1.95
1330414--1330821	68	6.0	68	82	0	485	30	13	24	31	1.94
1330208--1331260	217	4.9	216	82	5	1226	31	12	24	31	1.92
1330846--1331038	68	2.8	67	85	3	235	31	11	25	31	1.92
1330693--1330970	149	1.9	149	86	1	396	30	11	24	33	1.90
1330971--1331119	81	1.8	81	86	2	219	33	10	24	30	1.90
1330914--1331187	149	1.8	149	86	0	395	31	11	26	30	1.92
1331052--1331237	68	2.7	68	85	3	232	30	12	27	29	1.93
1340383--1341169	46	17.2	46	85	1	981	24	21	13	41	1.88
1344527--1344834	54	5.7	53	79	6	300	32	19	16	31	1.94
1344536--1344834	162	1.8	162	82	5	390	32	19	16	32	1.94
1344887--1344934	22	2.2	22	92	3	80	41	4	12	41	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1348193--1348233	21	2.0	21	90	0	64	29	29	12	29	1.93
1353443--1353495	20	2.5	22	81	6	65	30	15	26	28	1.96
1353825--1354104	54	5.2	54	89	0	398	32	18	18	30	1.95
1353822--1354135	162	1.9	162	88	0	466	33	17	18	30	1.94
1359964--1360367	55	7.3	55	81	3	456	28	19	18	33	1.95
1360786--1360835	20	2.5	21	80	9	68	18	32	14	36	1.90
1363254--1363364	29	3.8	29	95	0	195	45	24	9	20	1.82
1370688--1370770	29	2.9	29	92	0	139	45	22	10	20	1.82
1370661--1370770	58	1.9	58	86	3	159	46	21	9	22	1.79
1379612--1379663	21	2.5	21	84	3	61	38	5	23	32	1.78
1379612--1379654	20	2.1	20	86	4	59	37	6	20	34	1.80
1381667--1381812	77	1.9	78	82	2	186	46	5	6	41	1.54
1390662--1390711	21	2.4	22	80	6	59	32	2	26	40	1.67
1393137--1393183	19	2.5	19	85	0	67	51	6	8	34	1.58
1396772--1397223	81	5.6	81	84	1	546	33	12	22	31	1.91
1396772--1397220	243	1.9	242	85	2	632	33	12	22	31	1.91
1402587--1403729	81	14.1	81	86	2	1443	33	13	22	30	1.92
1421861--1422070	65	3.2	64	78	12	189	30	22	18	27	1.97
1427862--1427953	44	2.1	44	86	11	129	28	23	21	26	1.99
1427862--1427925	21	3.0	20	78	10	58	31	25	20	23	1.98
1427878--1427956	23	3.6	22	78	11	99	25	22	25	26	2.00
1427862--1427979	43	2.8	43	76	12	118	27	25	22	24	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1429469--1429511	21	2.0	21	86	0	59	9	39	16	34	1.80
1430153--1430215	31	2.0	31	93	0	108	41	3	26	28	1.71
1434935--1434988	18	3.1	17	79	12	56	29	7	29	33	1.85
1439180--1439216	3	12.3	3	100	0	74	67	0	0	32	0.91
1442354--1442616	44	6.0	44	87	1	368	25	24	12	38	1.90
1445596--1445648	17	3.1	17	83	0	70	43	3	15	37	1.64
1448302--1448564	44	6.0	43	84	3	321	25	23	12	38	1.90
1451543--1451595	17	3.1	17	83	0	70	43	3	15	37	1.64
1454512--1454564	17	3.1	17	73	10	54	45	3	11	39	1.58
1458386--1458438	17	3.1	17	88	0	79	41	5	15	37	1.70
1458389--1458444	17	3.2	17	84	2	58	41	7	12	39	1.70
1459873--1460507	46	13.8	46	88	0	858	24	21	11	42	1.85
1459962--1460036	20	3.4	20	69	22	60	24	20	9	46	1.79
1467174--1467346	46	3.7	47	82	9	153	21	20	12	45	1.83
1467242--1467319	20	3.5	20	78	20	84	20	25	11	42	1.86
1467200--1467346	46	3.2	46	90	2	215	21	21	12	44	1.85
1467263--1467707	72	6.3	72	78	12	460	23	20	11	44	1.84
1467334--1467563	46	4.8	45	82	9	255	24	21	10	43	1.83
1467307--1467563	99	2.7	97	87	4	353	23	20	11	44	1.84
1467409--1467655	118	2.1	118	89	0	377	24	21	11	42	1.86
1467557--1467655	46	2.2	46	90	0	153	23	20	14	42	1.88
1467460--1467694	20	10.6	20	70	16	101	23	22	11	42	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1475698--1475774	17	4.5	17	76	12	59	38	9	12	38	1.76
1475731--1475775	18	2.6	18	86	10	58	42	11	8	37	1.72
1481711--1481735	13	1.9	13	100	0	50	8	24	0	68	1.16
1481877--1481921	17	2.6	17	89	0	63	40	11	17	31	1.85
1481913--1481967	17	3.2	17	79	5	58	41	12	14	30	1.83
1488844--1488883	20	2.0	20	85	4	55	30	12	12	45	1.79
1489152--1489306	40	3.9	41	82	6	201	40	17	17	24	1.90
1490260--1490296	16	2.3	16	90	0	56	18	18	0	62	1.34
1490349--1490381	17	1.9	17	93	0	57	30	33	0	36	1.58
1496833--1496886	24	2.2	24	90	0	81	25	25	14	33	1.95
1508693--1508735	15	3.0	15	83	10	54	60	0	25	13	1.34
1508704--1508742	21	1.9	19	90	10	60	61	0	25	12	1.31
1509121--1509164	20	2.1	22	87	8	65	36	29	0	34	1.58
1509153--1509211	2	31.0	2	90	10	97	47	0	0	52	1.00
1509504--1509553	17	3.1	17	68	26	54	20	6	22	52	1.68
1513054--1513215	40	4.1	40	92	0	279	24	17	25	32	1.96
1513320--1513530	45	4.7	45	89	4	311	39	8	21	31	1.82
1514624--1514699	25	2.8	26	86	7	91	59	14	15	10	1.61
1518926--1518977	24	2.2	24	86	6	70	30	26	19	23	1.98
1522015--1522142	47	2.8	47	88	3	190	39	6	21	33	1.78
1529315--1529487	47	3.8	45	90	3	240	38	7	21	32	1.81
1540945--1540982	16	2.4	16	86	8	51	2	13	2	81	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1540962--1541019	19	2.8	21	76	23	61	1	17	3	77	0.99
1540956--1541019	13	5.1	12	77	18	60	1	15	3	79	0.93
1540965--1541017	28	1.9	27	85	11	72	1	16	3	77	1.01
1540944--1541026	36	2.3	36	82	15	109	2	15	4	77	1.05
1540965--1541022	20	2.9	20	76	23	68	1	17	3	77	0.99
1543779--1543814	2	18.0	2	94	0	63	47	0	2	50	1.15
1547047--1547078	14	2.3	15	89	10	50	3	12	9	75	1.16
1547371--1547408	2	19.0	2	100	0	76	50	0	0	50	1.00
1550636--1550667	14	2.3	15	89	10	50	3	12	9	75	1.16
1550962--1551029	2	34.0	2	100	0	136	50	0	0	50	1.00
1558516--1558569	23	2.2	25	87	6	76	9	18	12	59	1.60
1560491--1560583	48	1.9	48	100	0	186	29	8	27	34	1.87
1578487--1578511	12	2.1	12	100	0	50	16	44	0	40	1.47
1579029--1579068	2	20.0	2	100	0	80	50	0	0	50	1.00
1582269--1582311	20	2.2	20	87	4	61	34	9	6	48	1.62
1582653--1582757	35	3.0	35	90	1	156	27	38	4	29	1.77
1584138--1584177	20	2.1	19	85	4	53	42	10	17	30	1.82
1585614--1585700	24	3.6	24	82	3	95	33	12	27	26	1.93
1593598--1593649	21	2.6	19	84	6	68	32	13	9	44	1.76
1594351--1594413	10	6.2	9	75	21	54	79	1	14	4	0.97
1594354--1594415	21	3.1	19	76	15	61	77	1	16	4	1.02
1594355--1594415	22	2.9	20	77	15	61	77	1	16	4	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1594625--1594659	17	2.0	18	88	5	54	11	31	0	57	1.34
1604751--1604802	21	2.6	21	90	6	81	32	13	7	46	1.72
1606624--1606674	24	2.1	24	92	0	84	58	15	13	11	1.63
1608067--1608105	19	1.9	19	85	10	51	20	7	5	66	1.36
1613126--1613178	19	2.8	19	94	0	88	3	18	1	75	1.05
1617640--1617692	19	2.8	19	94	0	88	3	18	1	75	1.05
1622228--1622280	19	2.8	19	94	0	88	3	18	1	75	1.05
1623000--1623050	19	2.6	20	90	3	77	43	5	15	35	1.71
1626427--1626452	8	3.2	8	100	0	52	0	23	0	76	0.78
1626741--1626786	18	2.3	19	82	17	58	67	0	8	23	1.18

Tables:   1   2   3   4   5   6   7   8