genome.fa.s9580.2.7.7.80.10.50.1000.6.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: VEPZ01009580.1 Hibiscus syriacus cultivar Beakdansim tig00116954_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1633873

Tables:   1   2   3   4   5   6   

This is table  6  of  6  ( 709 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)
1290298--1290342	4	11.8	4	83	9	58	51	22	0	26	1.49
1304006--1304049	23	1.9	23	95	0	79	34	11	34	20	1.88
1306862--1306911	14	3.7	13	76	7	55	26	4	8	62	1.41
1306854--1306912	27	2.2	27	96	0	109	22	3	8	66	1.34
1307324--1307363	21	1.9	21	85	10	55	47	10	15	27	1.77
1317592--1317617	13	2.0	13	100	0	52	38	23	7	30	1.83
1322979--1323026	21	2.3	21	82	3	62	56	4	0	39	1.19
1323566--1323948	65	5.9	65	94	0	635	19	19	26	33	1.96
1331866--1331994	30	4.3	30	95	1	215	28	26	23	21	1.99
1331887--1332084	30	6.5	30	84	6	139	31	22	21	25	1.98
1331866--1332019	60	2.6	60	87	2	211	29	26	22	20	1.99
1331977--1332105	63	2.1	61	87	7	188	32	20	20	27	1.97
1331980--1332107	31	4.1	31	80	9	152	33	21	18	26	1.96
1332801--1332842	22	2.0	22	85	4	59	33	26	0	40	1.56
1333293--1333333	21	2.0	21	85	0	55	14	21	31	31	1.94
1336446--1336574	30	4.3	30	96	1	224	29	25	23	21	1.99
1336446--1336664	30	7.2	30	83	6	138	31	23	21	24	1.98
1336446--1336597	60	2.5	60	88	2	216	30	25	23	21	1.99
1336560--1336687	31	4.1	31	78	7	134	33	20	18	27	1.96
1336557--1336685	63	2.1	61	85	7	179	32	19	20	27	1.97
1337383--1337424	22	2.0	22	85	4	59	33	26	0	40	1.56
1337874--1337918	21	2.1	21	83	0	54	13	24	31	31	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1343364--1343406	2	22.0	2	95	4	79	51	0	0	48	1.00
1344445--1344488	21	2.1	21	82	0	52	54	6	0	38	1.27
1353366--1353437	37	2.0	37	83	8	94	50	4	0	45	1.21
1354529--1354590	29	2.2	28	91	2	97	25	6	25	41	1.79
1355826--1355895	18	3.9	18	74	10	63	44	1	45	8	1.43
1355861--1355899	9	4.3	9	83	0	51	43	0	51	5	1.24
1385279--1385381	4	25.8	4	100	0	206	50	24	0	25	1.49
1387274--1387394	60	2.0	60	98	0	233	30	15	14	39	1.87
1391681--1391821	60	2.3	59	81	6	165	30	20	5	43	1.75
1391940--1392105	60	2.8	60	80	6	192	40	4	21	32	1.74
1393204--1393264	31	2.0	32	84	12	83	57	1	8	32	1.38
1395098--1395152	27	2.0	27	85	0	74	61	7	1	29	1.33
1395678--1395737	26	2.3	26	81	16	63	30	11	6	51	1.64
1401864--1402400	267	2.0	268	99	0	1058	34	17	17	30	1.94
1403267--1403389	54	2.3	54	94	0	210	27	21	27	23	1.99
1418829--1418866	10	3.8	10	85	0	58	7	10	21	60	1.54
1418823--1418867	20	2.2	20	88	0	72	11	11	22	55	1.66
1419476--1419542	16	4.3	16	88	3	93	10	8	19	61	1.54
1419604--1419634	16	1.9	16	93	0	53	9	16	16	58	1.63
1422395--1422457	25	2.4	27	81	13	85	41	3	12	42	1.59
1424921--1425016	48	2.0	48	100	0	192	25	16	22	35	1.95
1427528--1427571	22	2.0	22	91	8	72	36	9	13	40	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1427669--1427731	32	2.0	32	83	0	81	47	3	3	46	1.34
1427693--1427735	11	3.9	11	81	6	52	53	0	0	46	1.00
1435784--1435865	19	4.2	19	74	12	67	50	0	0	50	1.00
1435769--1435872	38	2.9	36	84	9	131	52	0	0	47	1.00
1436024--1436054	11	2.8	11	95	0	53	22	58	19	0	1.40
1437395--1437454	29	2.0	30	87	3	86	21	20	15	43	1.88
1437953--1437980	2	14.0	2	100	0	56	50	0	0	50	1.00
1444150--1444191	20	2.1	20	100	0	84	16	21	23	38	1.93
1445877--1446392	160	3.2	159	86	3	687	40	19	12	26	1.88
1449695--1449770	39	2.0	38	90	7	120	44	14	26	14	1.83
1474914--1474940	4	6.8	4	100	0	54	22	0	0	77	0.76
1477134--1477536	201	2.0	202	99	0	799	27	22	18	30	1.98
1480048--1480098	2	25.5	2	100	0	102	49	0	0	50	1.00
1484479--1484813	125	2.7	124	80	9	387	46	15	14	23	1.82
1484811--1484878	30	2.3	30	85	10	86	61	4	8	25	1.44
1492354--1492386	17	1.9	17	100	0	66	18	9	18	54	1.69
1492760--1492816	24	2.4	24	93	0	96	31	22	26	19	1.98
1493003--1493072	31	2.3	30	82	4	79	35	25	1	37	1.65
1500810--1500878	23	3.0	23	77	12	79	27	26	23	23	2.00
1500894--1501111	103	2.1	103	99	0	427	36	25	13	23	1.92
1501657--1501699	21	2.0	21	90	0	68	16	23	27	32	1.96
1507816--1508033	103	2.1	103	97	0	409	36	25	13	24	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1511571--1511696	63	2.0	63	84	0	162	23	22	17	37	1.94
1514278--1514321	19	2.3	19	92	0	70	40	27	4	27	1.75
1514308--1514358	22	2.3	22	96	0	93	33	29	5	31	1.81
1535243--1535269	8	3.4	8	100	0	54	40	0	11	48	1.39
1536578--1536617	2	20.0	2	100	0	80	0	0	50	50	1.00
1540253--1540414	40	4.1	40	96	0	288	34	26	15	23	1.94
1545006--1545040	16	2.2	16	89	0	52	25	11	11	51	1.71
1546593--1546653	30	2.0	30	96	0	113	31	29	18	21	1.96
1547181--1547258	40	2.0	40	97	0	147	30	26	17	24	1.97
1552818--1552843	2	13.0	2	100	0	52	0	0	50	50	1.00
1554083--1554166	23	3.7	23	86	0	114	28	27	23	20	1.99
1554075--1554165	46	2.0	46	88	0	137	29	26	23	20	1.99
1555617--1555674	20	2.7	20	86	10	71	24	22	22	31	1.99
1555662--1555820	63	2.5	63	82	8	187	27	23	17	31	1.97
1558757--1558788	12	2.7	12	100	0	64	6	34	9	50	1.60
1559277--1559330	23	2.3	23	87	0	81	31	24	25	18	1.97
1560820--1560981	64	2.5	63	77	6	173	25	22	17	33	1.96
1561450--1561507	23	2.5	23	91	0	98	53	18	0	27	1.45
1561827--1561901	3	24.7	3	94	2	132	1	33	0	65	1.01
1562439--1562597	64	2.5	64	85	4	196	34	19	17	28	1.95
1563252--1563396	31	4.7	31	98	0	263	18	17	23	40	1.92
1564253--1564309	23	2.5	23	80	11	71	19	24	26	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1571801--1571849	2	26.0	2	76	12	50	46	2	0	51	1.12
1572178--1572223	23	2.0	23	83	8	58	54	2	4	39	1.32
1572217--1572285	24	2.9	23	72	8	66	65	1	1	31	1.11
1572347--1572410	33	2.0	32	84	9	85	50	1	1	46	1.20
1576955--1577008	23	2.4	23	79	17	60	55	5	5	33	1.46
1579529--1580178	350	1.9	350	94	1	1151	35	14	12	36	1.84
1582830--1582936	24	4.5	24	91	0	160	31	13	32	22	1.92
1582784--1582937	72	2.1	72	78	4	168	32	12	32	22	1.92
1592020--1592081	31	2.1	31	84	6	83	35	16	4	43	1.69
1601817--1601892	38	2.0	38	89	5	118	42	35	9	13	1.76
1610233--1610266	16	2.1	16	94	0	59	32	26	8	32	1.87
1613434--1613500	30	2.2	30	100	0	134	43	0	11	44	1.41
1619533--1619592	18	3.3	18	83	6	77	16	46	20	16	1.84
1619572--1619605	15	2.4	14	90	5	50	14	32	23	29	1.94
1620900--1620935	18	2.0	18	88	0	54	52	0	16	30	1.44
1622074--1622163	23	3.8	24	83	4	121	25	16	20	37	1.93
1624354--1624397	13	3.2	13	83	6	52	15	40	22	20	1.90
1624332--1624377	18	2.6	18	96	0	83	17	52	19	10	1.74
1624372--1624405	15	2.3	15	94	0	59	14	32	26	26	1.95
1625700--1625735	18	2.0	18	88	0	54	52	0	16	30	1.44
1626863--1626952	23	3.8	24	83	4	121	25	16	20	37	1.93

Tables:   1   2   3   4   5   6

The End!