genome.fa.s8129.2.7.7.80.10.50.1000.6.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: VEPZ01008129.1 Hibiscus syriacus cultivar Beakdansim tig00110684_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2577775

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

This is table  6  of  10  ( 1095 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)
1231084--1231202	62	1.9	63	91	1	195	35	16	13	34	1.88
1232895--1232957	32	2.0	32	90	0	99	53	4	15	25	1.61
1235212--1235265	6	8.8	6	77	22	51	75	0	7	16	1.01
1236118--1236390	110	2.5	109	90	2	406	45	16	15	22	1.85
1236405--1236434	4	7.8	4	92	7	53	76	0	0	23	0.78
1237240--1237264	13	1.9	13	100	0	50	72	0	24	4	1.02
1238114--1238177	32	2.0	32	100	0	128	43	21	9	25	1.82
1239133--1239806	182	3.7	182	87	1	940	40	14	16	28	1.88
1240390--1240463	19	3.8	19	68	10	60	45	2	14	36	1.60
1241763--1241819	24	2.5	23	77	8	62	43	0	5	50	1.24
1242206--1242249	21	2.1	21	95	0	79	40	11	34	13	1.81
1242615--1243382	199	3.9	198	86	3	1008	38	13	15	32	1.87
1245895--1245941	25	2.0	24	84	16	62	74	8	17	0	1.05
1251695--1251743	19	2.6	19	83	0	71	34	4	8	53	1.50
1254194--1254911	199	3.6	197	84	5	851	39	14	15	30	1.87
1261003--1261061	6	10.2	6	77	15	54	79	3	15	1	0.94
1261000--1261061	16	3.7	16	74	16	54	79	3	16	1	0.95
1261000--1261068	25	2.8	24	80	10	77	78	2	17	1	0.95
1261000--1261057	5	11.4	5	73	23	50	79	3	15	1	0.95
1271946--1272113	90	1.9	89	92	3	284	35	14	6	43	1.71
1273111--1273222	46	2.4	46	91	2	181	36	4	25	33	1.76
1275635--1275753	62	1.9	63	91	1	195	35	15	12	36	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1276649--1276696	5	9.4	5	81	4	60	75	0	6	18	1.01
1276680--1276725	24	1.9	24	81	0	56	76	2	8	13	1.11
1277273--1277301	9	3.3	9	90	9	51	79	0	0	20	0.74
1277440--1277534	32	2.9	32	89	4	147	52	3	16	27	1.59
1280520--1280616	34	2.9	32	80	10	115	54	3	17	24	1.57
1280624--1280909	109	2.6	108	86	2	378	43	15	18	22	1.87
1281684--1281718	13	2.8	13	95	4	63	71	0	22	5	1.07
1281944--1281969	11	2.4	11	100	0	52	69	0	7	23	1.14
1286920--1286953	3	11.3	3	100	0	68	67	32	0	0	0.91
1287122--1287151	13	2.2	14	94	5	53	20	26	13	40	1.89
1290231--1290343	48	2.3	49	89	3	167	34	20	18	26	1.96
1290231--1290329	24	4.1	24	93	0	162	35	21	19	24	1.96
1294681--1294741	20	2.9	21	85	7	70	16	26	32	24	1.96
1303968--1304006	17	2.4	16	87	12	53	53	0	0	46	1.00
1304371--1304411	20	2.0	20	100	0	82	56	0	4	39	1.21
1304513--1304672	79	2.0	80	90	2	250	35	21	17	25	1.95
1305719--1305751	17	1.9	17	93	0	57	27	45	21	6	1.75
1312201--1312249	2	24.5	2	100	0	98	51	0	0	48	1.00
1314496--1314606	37	3.0	37	73	13	102	33	16	11	38	1.85
1314687--1315018	67	5.0	67	88	2	490	28	18	12	40	1.88
1317486--1317688	37	5.5	38	79	10	127	31	18	12	37	1.88
1317507--1317689	37	4.9	37	76	12	178	31	18	12	37	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1317524--1317666	73	2.0	73	83	8	184	31	16	13	38	1.87
1317716--1318047	67	5.0	67	86	2	445	28	17	13	40	1.88
1317716--1318047	134	2.5	133	89	1	495	28	17	13	40	1.88
1318204--1318342	40	3.4	40	74	9	127	26	32	14	26	1.95
1318200--1318354	83	1.9	83	86	0	220	25	31	15	27	1.96
1319458--1319513	21	2.7	21	75	8	60	26	23	10	39	1.87
1322864--1323039	46	3.9	46	90	2	277	37	7	23	31	1.83
1325678--1325732	6	9.2	6	76	11	51	78	3	16	1	0.98
1325669--1325729	15	3.9	16	71	26	51	78	3	14	3	1.00
1325670--1325744	26	2.9	26	75	9	73	77	2	16	4	1.03
1329489--1329661	46	3.8	45	88	5	260	38	6	22	31	1.81
1330756--1330816	30	2.0	30	90	6	97	26	37	18	18	1.93
1331960--1332076	62	1.9	62	90	0	189	36	16	11	35	1.84
1333694--1333786	32	2.9	32	88	4	134	51	3	17	27	1.60
1336843--1336935	32	2.9	32	82	4	107	54	3	11	30	1.52
1336953--1337235	109	2.6	108	84	6	390	44	13	16	24	1.84
1338044--1338072	11	2.5	12	88	11	51	72	0	20	6	1.07
1342712--1342774	18	3.5	18	88	0	90	36	14	28	20	1.92
1345762--1345802	20	2.0	20	100	0	82	56	0	4	39	1.21
1345903--1346062	79	2.0	80	91	2	259	33	22	18	25	1.96
1346984--1347008	3	8.3	3	100	0	50	36	0	0	64	0.94
1347101--1347141	17	2.5	16	88	4	64	24	48	21	4	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1348976--1349006	5	6.2	5	92	0	53	16	0	3	80	0.83
1355007--1355046	21	1.9	21	89	0	62	10	25	40	25	1.86
1355027--1355089	20	2.9	21	79	9	65	15	25	34	23	1.95
1358897--1358936	21	1.9	21	85	10	55	35	10	2	52	1.48
1364005--1364194	38	5.1	36	78	9	157	31	18	12	37	1.89
1364002--1364208	76	2.7	75	76	9	215	32	18	11	37	1.87
1364236--1364419	67	2.7	67	90	0	278	28	19	11	41	1.85
1364368--1364455	22	3.3	28	69	23	80	36	18	7	37	1.80
1364383--1364480	22	4.1	22	71	20	72	28	19	9	42	1.82
1364296--1364519	119	1.9	116	87	2	331	30	18	11	39	1.86
1364423--1364558	64	2.1	65	90	1	211	30	18	12	38	1.88
1364556--1364813	131	2.0	131	82	3	313	25	30	17	25	1.98
1364710--1364855	40	3.6	40	72	9	114	23	32	19	25	1.97
1367029--1367123	38	2.5	38	82	3	102	31	17	12	37	1.88
1367057--1367166	38	2.9	38	85	6	136	30	18	11	39	1.86
1367254--1367584	67	5.0	67	87	2	488	27	19	14	38	1.90
1367607--1367726	43	2.9	40	70	10	116	25	32	18	24	1.97
1367908--1367977	3	22.7	3	85	5	95	37	1	1	60	1.15
1367909--1367966	16	3.7	16	95	2	100	36	0	1	62	1.06
1367998--1368027	12	2.5	12	94	0	51	33	43	23	0	1.54
1368481--1368513	2	16.5	2	100	0	66	51	0	0	48	1.00
1369947--1369976	5	6.0	5	92	0	51	16	0	3	80	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1375535--1375580	24	1.9	24	86	0	65	30	15	26	28	1.96
1378408--1378455	23	2.0	24	84	4	62	33	18	14	33	1.91
1380307--1380354	24	2.0	24	91	0	78	20	29	16	33	1.95
1383149--1383330	93	2.0	93	86	0	256	25	19	18	36	1.94
1383903--1383970	35	1.9	36	87	3	102	36	11	19	32	1.88
1383998--1384124	66	1.9	66	88	0	191	37	14	20	27	1.92
1392401--1392619	99	2.2	100	81	7	255	36	14	19	29	1.91
1398918--1399366	55	8.2	55	84	4	550	31	19	19	29	1.96
1398937--1399366	110	3.9	110	88	2	623	31	19	19	29	1.96
1399773--1399836	22	3.0	23	75	20	59	23	34	14	28	1.93
1399709--1399911	95	2.1	96	85	9	283	26	25	16	31	1.97
1408644--1408730	3	30.0	3	83	6	99	62	1	3	33	1.20
1409129--1409237	42	2.6	41	81	7	121	33	21	21	24	1.97
1409447--1409507	20	2.9	21	70	13	54	32	22	21	22	1.98
1409376--1409922	211	2.6	212	93	1	920	33	20	21	25	1.97
1410162--1410281	42	2.9	42	87	0	159	33	21	21	23	1.97
1411706--1411731	13	2.0	13	100	0	52	15	38	23	23	1.92
1412513--1412572	9	5.9	10	76	19	54	3	18	0	78	0.89
1412514--1412572	21	2.7	21	77	15	59	3	18	0	77	0.90
1412512--1412556	20	2.2	20	81	18	58	4	17	0	77	0.92
1419538--1419591	3	19.0	3	81	11	60	64	0	0	35	0.94
1419539--1419572	17	2.0	17	94	0	59	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1419537--1419586	26	1.9	26	91	0	82	62	0	0	38	0.96
1421614--1421788	59	2.9	56	75	13	154	33	17	6	42	1.74
1424622--1424728	42	2.6	42	86	1	153	19	11	15	53	1.72
1425027--1425090	28	2.2	28	81	8	67	54	0	1	43	1.09
1425025--1425100	19	3.9	19	72	14	57	55	0	1	43	1.08
1425063--1425130	11	6.0	11	70	16	50	48	1	0	50	1.10
1425076--1425111	12	2.8	14	80	20	51	52	0	0	47	1.00
1425076--1425139	23	2.7	23	85	4	74	51	1	0	46	1.10
1425239--1425290	27	1.9	27	85	14	72	51	0	0	48	1.00
1425227--1425324	49	2.0	50	82	9	121	50	0	2	47	1.12

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