genome.fa.s8353.2.7.7.80.10.50.1000.7.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: VEPZ01008353.1 Hibiscus syriacus cultivar Beakdansim tig00111088_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2583621

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  7  of  13  ( 1447 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)
1269113--1269139	2	13.5	2	100	0	54	51	0	0	48	1.00
1269161--1269202	21	2.0	22	85	4	59	59	0	19	21	1.38
1272378--1272410	3	11.0	3	100	0	66	33	0	0	66	0.92
1273495--1273527	17	2.0	17	88	5	50	42	0	42	15	1.46
1274031--1274074	18	2.4	18	85	7	63	20	4	4	70	1.23
1285851--1285913	14	4.6	14	79	16	78	77	9	0	12	0.98
1285851--1285912	26	2.3	27	86	10	83	77	9	0	12	0.99
1285864--1285929	30	2.3	30	82	10	75	81	6	1	10	0.92
1286917--1287231	43	6.7	46	68	16	139	27	29	17	26	1.98
1286865--1287305	141	3.2	141	91	4	668	27	28	18	25	1.98
1287518--1287576	3	20.0	3	96	3	111	32	0	0	67	0.91
1288662--1288694	17	2.0	17	88	5	50	42	0	42	15	1.46
1289197--1289238	18	2.3	19	84	12	61	21	4	4	69	1.26
1292401--1292492	42	2.2	42	84	0	112	22	8	17	51	1.73
1298533--1298715	75	2.4	75	83	7	237	43	10	12	33	1.76
1298690--1298761	23	3.1	23	82	4	92	38	15	13	31	1.87
1298750--1298890	75	1.9	75	90	0	228	46	9	11	32	1.73
1298593--1299005	196	2.1	195	85	4	553	43	11	12	32	1.78
1299049--1299101	25	2.1	25	100	0	106	39	11	7	41	1.69
1299422--1299699	107	2.6	106	85	5	380	35	13	11	38	1.81
1299547--1299946	213	1.9	213	88	2	606	33	15	13	38	1.85
1300183--1300224	21	2.0	21	86	9	59	9	23	16	50	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1301619--1301662	20	2.2	20	83	0	52	40	0	2	56	1.11
1311168--1311247	3	26.7	3	78	5	81	56	1	1	41	1.15
1311419--1311792	73	5.1	73	92	0	586	35	12	19	32	1.89
1312495--1312550	20	2.7	20	94	5	94	35	14	16	33	1.88
1313847--1314019	75	2.3	75	80	3	195	30	24	14	30	1.95
1316261--1316395	72	1.9	72	93	0	234	36	18	20	24	1.95
1318500--1318540	14	2.9	14	85	0	55	58	9	14	17	1.62
1321532--1321605	2	37.5	2	97	2	141	50	0	0	50	1.00
1323347--1323436	3	30.3	3	72	10	69	56	1	2	40	1.19
1323340--1323377	12	3.2	12	81	11	51	52	0	0	47	1.00
1323357--1323414	16	3.6	15	76	15	62	56	1	1	39	1.19
1323386--1323436	25	2.1	25	85	7	70	54	1	3	39	1.30
1323861--1323893	13	2.5	14	85	14	52	63	6	6	24	1.40
1328671--1328735	3	21.7	3	100	0	130	67	0	0	32	0.91
1339896--1339946	19	2.7	19	96	0	93	25	31	21	21	1.98
1340077--1340170	20	4.7	20	80	7	100	34	24	18	23	1.96
1340710--1340892	19	10.1	19	80	12	206	11	21	20	46	1.82
1340762--1340867	33	3.1	33	89	6	140	10	23	22	43	1.84
1340710--1340892	90	2.0	91	91	1	296	11	21	20	46	1.82
1342349--1342473	63	2.0	63	96	0	232	23	19	34	23	1.96
1343078--1343211	42	3.2	42	76	4	162	23	37	17	21	1.94
1343184--1343250	21	3.2	21	66	6	55	23	35	20	19	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1343045--1343220	84	2.1	84	96	0	325	22	36	17	23	1.94
1343045--1343250	42	4.9	41	70	9	137	22	35	17	23	1.95
1343045--1343250	84	2.5	84	91	1	288	22	35	17	23	1.95
1344608--1344643	14	2.6	14	95	0	63	30	0	25	44	1.54
1344750--1344802	19	2.8	19	97	0	97	45	20	20	13	1.84
1344807--1344957	19	8.7	19	63	21	71	15	23	20	41	1.90
1344811--1344937	33	3.9	32	85	8	184	14	23	19	41	1.89
1344804--1344936	66	2.0	66	95	0	239	16	23	19	40	1.91
1347228--1347252	12	2.1	12	100	0	50	0	28	0	72	0.86
1347427--1347494	24	2.8	24	84	0	82	38	19	16	26	1.92
1348227--1348275	20	2.5	20	100	0	98	30	18	30	20	1.96
1348488--1348537	19	2.5	20	93	3	84	34	28	22	16	1.95
1348563--1348627	19	3.7	19	86	13	95	13	21	18	46	1.84
1348633--1348671	20	2.0	20	94	0	69	12	10	30	46	1.75
1348754--1348790	14	2.6	14	86	0	56	48	21	0	29	1.50
1350634--1350700	20	3.3	20	81	4	62	41	25	17	14	1.88
1350666--1350710	20	2.3	20	84	3	65	37	20	24	17	1.93
1350710--1350767	14	3.9	14	77	16	62	50	24	15	10	1.75
1350694--1350784	32	2.8	33	93	3	157	48	21	17	12	1.80
1350634--1350789	19	8.6	19	70	19	73	44	23	18	13	1.85
1350801--1350858	14	3.9	14	77	16	62	10	15	24	50	1.75
1350796--1350874	32	2.4	33	93	2	133	11	17	22	48	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1350859--1350913	20	2.8	19	83	8	65	16	23	23	36	1.94
1351395--1351439	18	2.5	18	92	0	81	13	13	44	28	1.81
1353289--1353423	20	6.7	20	80	7	121	24	17	24	33	1.96
1353289--1353426	61	2.3	61	85	0	195	23	17	23	34	1.96
1353289--1353444	61	2.6	61	82	2	161	23	19	23	33	1.97
1356541--1356588	20	2.4	20	100	0	96	25	27	29	18	1.98
1367428--1367519	35	2.6	36	87	5	141	33	2	17	46	1.60
1372012--1372118	35	2.9	36	87	5	153	31	4	18	44	1.70
1372013--1372130	35	3.3	35	85	8	148	33	3	18	44	1.67
1382909--1382974	26	2.5	26	100	0	132	15	0	66	18	1.25
1383193--1383230	3	12.7	3	94	0	67	2	0	65	31	1.06
1389385--1389436	25	2.1	25	100	0	104	38	13	7	40	1.73
1391815--1391884	34	2.1	32	89	5	104	21	31	15	31	1.95
1392313--1392368	19	2.9	19	91	0	76	35	12	10	41	1.78
1392332--1392379	19	2.5	19	89	0	60	37	10	8	43	1.69
1392444--1392533	31	3.0	31	96	3	166	43	17	5	33	1.73
1392694--1392739	21	2.2	21	92	0	74	32	2	8	56	1.42
1394713--1394782	34	2.1	32	89	5	104	21	31	15	31	1.95
1395066--1395107	21	2.0	21	95	0	75	26	28	21	23	1.99
1395307--1395366	29	2.0	31	93	6	106	43	16	6	33	1.74
1398882--1398918	18	2.0	19	89	5	58	43	0	13	43	1.44
1398841--1398998	45	4.1	37	66	18	113	50	0	6	42	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1398915--1399009	45	2.1	45	98	0	181	51	0	8	40	1.32
1398888--1399077	53	3.5	53	76	10	172	48	0	7	43	1.32
1399880--1400001	45	2.5	47	85	12	167	41	5	0	52	1.25
1399925--1400001	22	3.5	22	76	3	91	42	3	0	53	1.19
1399913--1400007	45	2.1	45	98	0	181	40	8	0	51	1.32
1400004--1400053	18	2.7	19	84	6	66	42	12	0	46	1.41
1401893--1401935	19	2.3	19	84	4	52	32	0	2	65	1.06
1407197--1407242	3	16.0	3	82	17	62	34	0	0	65	0.93
1407194--1407250	30	1.9	30	86	13	82	35	0	0	64	0.93
1408600--1408658	26	2.3	26	78	0	64	23	3	1	71	1.11
1409456--1409496	21	2.0	21	85	0	55	24	4	2	68	1.22
1411125--1411163	14	2.8	14	80	0	51	28	7	5	58	1.47
1411125--1411192	29	2.4	29	82	2	75	22	8	10	58	1.58
1415133--1415177	22	2.0	22	86	4	63	31	33	26	8	1.87
1416385--1416602	103	2.1	103	97	0	409	26	14	23	36	1.93
1416619--1416678	23	2.6	23	89	0	84	20	25	28	26	1.99
1416608--1416686	23	3.4	22	79	6	77	22	20	22	34	1.97
1420498--1420542	22	2.0	22	86	4	63	31	33	26	8	1.87
1421855--1421890	18	2.0	18	94	0	63	11	19	33	36	1.87
1421752--1421982	121	1.9	121	97	0	435	24	13	25	36	1.92
1421992--1422069	23	3.3	23	81	1	93	24	19	23	33	1.97
1422873--1422900	12	2.3	12	100	0	56	85	7	7	0	0.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1425165--1425381	114	1.9	114	92	0	362	32	14	21	31	1.93
1427454--1427596	50	2.9	50	96	0	259	37	12	22	27	1.90
1427964--1428040	22	3.5	22	92	0	127	38	6	14	40	1.72
1428718--1429027	76	4.1	77	91	1	507	24	19	20	34	1.96
1428719--1429023	153	2.0	153	96	0	556	24	19	20	35	1.96
1429025--1429577	113	4.9	111	86	2	746	38	15	18	27	1.91
1429525--1429672	61	2.4	62	92	2	237	33	15	18	31	1.93
1430166--1430196	3	10.0	3	93	6	53	32	0	0	67	0.91
1431465--1431538	14	5.1	14	71	15	53	28	6	1	63	1.28
1431554--1431612	3	20.3	3	75	13	52	27	3	1	67	1.16

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13