genome.fa.s7957.2.7.7.80.10.50.1000.7.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: VEPZ01007957.1 Hibiscus syriacus cultivar Beakdansim tig00110384_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8646418

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   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   

This is table  7  of  43  ( 5063 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)
1331657--1331703	18	2.6	18	83	10	60	74	0	2	23	0.93
1332759--1332808	9	5.8	9	79	9	59	74	0	0	26	0.83
1332751--1332808	25	2.3	25	85	5	73	72	0	1	25	0.94
1332759--1332809	16	3.5	16	80	20	67	72	0	0	27	0.85
1332798--1332845	25	2.0	25	84	12	64	52	4	4	39	1.40
1332880--1332995	36	3.1	35	84	10	151	36	10	6	47	1.62
1332966--1333022	23	2.5	23	91	0	96	36	8	5	49	1.57
1332997--1333116	36	3.3	36	83	6	152	44	8	4	43	1.53
1334484--1334512	12	2.4	12	100	0	58	65	6	20	6	1.40
1334609--1334660	2	26.0	2	100	0	104	50	0	0	50	1.00
1336075--1336254	34	5.2	34	80	12	190	31	7	17	43	1.77
1336075--1336254	67	2.6	68	81	10	199	31	7	17	43	1.77
1336227--1336274	20	2.5	20	89	3	80	20	8	14	56	1.64
1336300--1336528	36	6.6	36	75	10	206	41	10	20	27	1.86
1336300--1336528	65	3.3	72	75	10	195	41	10	20	27	1.86
1336332--1336529	65	2.9	66	77	10	213	40	9	20	29	1.84
1343674--1343721	18	2.8	16	87	12	60	70	2	2	25	1.09
1344808--1344851	9	4.9	9	88	5	63	77	0	0	22	0.77
1344801--1344857	14	4.0	14	76	19	55	75	0	1	22	0.90
1344834--1344954	59	2.0	59	80	10	131	50	4	4	39	1.46
1344898--1344954	23	2.5	23	80	5	62	43	7	7	42	1.58
1344920--1345127	35	5.8	34	79	15	190	38	8	5	47	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1344920--1345127	75	2.9	71	83	11	223	38	8	5	47	1.57
1345007--1345166	35	4.4	37	80	11	145	40	7	3	48	1.49
1345671--1345711	17	2.4	17	83	0	55	29	17	14	39	1.89
1350048--1350111	23	2.8	23	85	0	83	25	18	26	29	1.98
1354703--1354870	37	5.0	36	75	19	141	30	7	17	44	1.76
1354704--1354879	33	5.2	32	75	19	123	30	7	17	44	1.77
1354852--1354899	20	2.5	20	89	3	80	20	8	14	56	1.64
1354925--1355153	36	6.6	36	75	12	199	41	11	19	27	1.86
1354925--1355153	65	3.3	72	74	12	179	41	11	19	27	1.86
1354957--1355154	65	2.9	66	75	12	206	40	10	19	28	1.85
1362039--1362083	18	2.3	20	88	7	67	68	2	2	26	1.12
1363182--1363227	8	5.5	8	87	10	56	76	0	0	23	0.79
1363225--1363345	58	2.1	58	83	13	151	44	6	4	43	1.52
1363291--1363531	35	6.9	33	76	16	186	39	9	3	47	1.52
1363291--1363497	69	3.0	65	80	11	184	39	8	3	48	1.51
1363303--1363532	69	3.3	66	79	11	180	39	9	3	47	1.52
1364029--1364069	17	2.4	17	83	0	55	29	17	14	39	1.89
1365528--1365569	21	2.0	21	100	0	84	28	19	19	33	1.96
1368348--1368408	22	2.7	23	79	5	70	24	19	24	31	1.98
1371541--1372101	280	2.0	280	95	3	1024	21	20	18	39	1.92
1376273--1376354	2	41.5	2	97	2	157	50	0	0	50	1.00
1390054--1390082	3	9.7	3	100	0	58	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)
1391564--1391615	9	5.9	9	78	13	63	69	0	0	30	0.89
1391555--1391614	16	3.6	15	77	20	57	68	0	1	30	0.99
1391557--1391606	19	2.6	19	81	12	66	68	0	2	30	1.01
1391564--1391615	16	3.5	16	77	17	67	69	0	0	30	0.89
1391659--1391878	75	3.0	74	83	9	254	39	9	5	45	1.58
1391631--1391878	36	6.6	37	77	15	199	39	9	5	45	1.59
1391656--1391880	37	6.0	37	76	10	174	38	9	5	46	1.60
1393121--1393190	21	3.6	20	77	13	74	74	0	4	21	0.99
1393138--1393190	19	2.9	17	81	18	63	79	0	3	16	0.88
1394742--1394975	34	6.7	34	77	10	206	31	8	15	44	1.78
1394742--1394975	71	3.4	69	78	11	244	31	8	15	44	1.78
1394797--1394949	69	2.2	70	80	15	176	29	8	15	46	1.75
1394984--1395402	36	12.1	36	76	10	327	39	11	19	29	1.87
1395016--1395403	136	2.8	137	89	2	586	38	11	19	30	1.87
1395052--1395237	99	1.9	101	89	2	295	40	8	19	31	1.82
1395311--1395373	21	3.3	21	62	25	57	44	6	20	28	1.76
1396701--1396927	95	2.6	89	80	12	236	30	18	20	29	1.97
1396761--1396940	95	1.9	95	90	2	290	29	17	20	32	1.95
1398600--1398640	21	2.0	21	85	0	55	19	29	4	46	1.71
1400837--1400882	19	2.2	21	85	11	60	60	0	8	30	1.26
1401495--1401660	20	8.2	20	80	7	165	27	25	21	25	1.99
1401815--1401857	22	2.0	22	95	0	77	23	41	16	18	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1402243--1402297	20	2.8	19	72	8	56	14	14	23	47	1.81
1404017--1404066	18	2.8	17	91	8	82	30	20	8	42	1.80
1404284--1404330	20	2.5	19	79	6	60	14	14	27	42	1.86
1406322--1406383	14	4.3	14	73	6	52	38	1	14	45	1.55
1406497--1406535	20	2.0	20	84	0	51	51	20	17	10	1.74
1406598--1406760	20	8.4	20	80	10	115	25	19	22	33	1.97
1406618--1406720	54	1.9	54	84	4	136	23	19	22	34	1.96
1406566--1406812	94	2.6	94	85	1	325	24	19	21	34	1.96
1406767--1406812	20	2.3	20	88	0	65	21	17	26	34	1.95
1406599--1406856	74	3.5	73	72	10	227	24	17	22	35	1.95
1406713--1406856	54	2.7	54	87	0	207	23	15	24	36	1.93
1406831--1407096	140	1.9	140	98	0	514	42	15	13	28	1.85
1407171--1407198	12	2.3	12	100	0	56	7	14	14	64	1.48
1410327--1410374	20	2.4	20	92	0	78	25	16	29	29	1.97
1411510--1411556	19	2.4	20	77	22	55	61	2	2	34	1.20
1417004--1417365	195	1.9	195	95	0	661	29	19	20	30	1.97
1418509--1418610	52	2.0	52	90	0	159	32	14	15	37	1.88
1418736--1418785	21	2.4	21	89	0	73	26	22	10	42	1.84
1418870--1418942	37	2.0	37	91	0	119	26	19	15	39	1.90
1418811--1419016	102	2.0	103	88	2	308	31	17	12	38	1.86
1418901--1419055	65	2.4	65	80	5	179	30	18	12	38	1.88
1418958--1419344	102	3.8	101	86	2	463	29	18	12	39	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1418714--1419283	269	2.2	266	90	4	911	28	18	12	40	1.87
1419126--1419211	37	2.4	37	86	2	111	25	20	15	38	1.92
1418907--1419276	167	2.2	162	81	9	408	29	18	12	39	1.88
1419227--1419312	36	2.4	36	90	0	127	24	20	13	40	1.89
1419295--1419353	30	2.0	30	87	12	86	38	16	10	33	1.83
1419385--1419476	36	2.6	34	83	6	87	22	18	16	42	1.89
1419408--1419476	36	1.9	36	93	0	120	21	20	14	43	1.87
1419494--1419583	35	2.6	35	92	0	153	40	21	8	30	1.83
1419587--1419821	84	2.8	84	80	1	247	31	24	20	23	1.98
1422309--1422340	2	16.0	2	100	0	64	50	0	0	50	1.00
1424993--1425043	3	17.0	3	82	8	59	39	0	1	58	1.09
1433700--1433792	19	4.9	18	77	13	89	77	1	18	3	0.96
1433687--1433809	9	14.4	8	72	18	65	77	0	18	3	0.96
1433687--1433797	51	2.2	50	83	6	134	77	0	18	3	0.96
1433674--1433801	41	3.1	40	79	15	104	76	2	17	3	1.04
1433699--1433809	26	3.9	28	68	22	61	77	0	18	2	0.94
1433687--1433809	58	2.1	61	85	10	166	77	0	18	3	0.96
1433701--1433801	9	10.3	10	76	15	88	77	0	18	2	0.96
1433729--1433809	8	9.4	9	71	20	59	77	0	19	2	0.88
1435585--1435946	54	6.6	55	83	3	417	32	10	16	41	1.81
1437008--1437071	17	3.3	19	71	20	60	40	10	23	25	1.87
1436849--1437381	139	3.8	139	92	0	852	35	18	21	24	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1437147--1437210	17	3.3	19	67	20	51	42	12	21	23	1.87
1437326--1437492	76	2.2	75	85	7	214	36	18	20	24	1.95
1439830--1439858	11	2.6	11	100	0	58	37	17	0	44	1.49
1440127--1440183	29	1.9	30	82	3	71	21	15	7	56	1.63
1441057--1441138	41	2.0	41	100	0	164	36	14	29	19	1.92
1441140--1441190	26	2.0	26	92	0	84	49	7	25	17	1.74
1443813--1443890	8	9.4	8	77	19	63	76	0	11	11	1.01
1444337--1444379	21	2.0	23	86	9	63	25	27	6	39	1.81
1447648--1447687	22	1.9	20	85	10	53	22	22	12	42	1.87
1453880--1454005	24	5.3	24	84	1	164	27	22	23	26	1.99

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   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43