genome.fa.s8117.2.7.7.80.10.50.1000.6.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: VEPZ01008117.1 Hibiscus syriacus cultivar Beakdansim tig00110656_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1567030

Tables:   1   2   3   4   5   6   7   

This is table  6  of  7  ( 808 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)
1196655--1196685	2	15.5	2	100	0	62	48	0	0	51	1.00
1198717--1198755	15	2.6	15	87	0	51	12	12	10	64	1.51
1198815--1198874	27	2.3	27	85	2	86	21	13	6	58	1.58
1198814--1198841	12	2.3	12	100	0	56	25	14	7	53	1.66
1198791--1198874	14	6.2	14	70	18	52	23	14	4	57	1.56
1200677--1200965	76	3.8	75	97	2	542	34	21	19	24	1.96
1200677--1200965	153	1.9	152	98	0	560	34	21	19	24	1.96
1200421--1201489	400	2.6	399	94	4	1807	36	17	16	28	1.92
1201077--1201364	76	3.8	76	98	0	549	35	21	19	23	1.96
1205102--1205160	31	1.9	31	100	0	118	32	18	16	32	1.94
1207648--1207710	31	2.0	31	100	0	126	31	15	19	33	1.93
1207831--1208082	76	3.3	76	96	1	461	24	19	21	34	1.97
1211275--1211375	32	3.2	32	72	2	87	34	15	23	25	1.95
1213289--1213331	21	2.0	23	90	9	72	51	0	0	48	1.00
1215266--1215738	182	2.6	182	89	2	702	43	13	16	26	1.85
1215645--1215705	20	3.1	19	77	9	59	55	9	14	19	1.67
1215276--1215738	180	2.6	181	89	2	689	43	13	16	26	1.86
1217903--1217967	21	3.1	21	88	0	94	41	10	29	18	1.84
1218001--1218063	33	1.9	33	86	0	90	28	0	47	23	1.52
1219858--1219906	19	2.6	19	93	0	80	30	2	10	57	1.43
1220025--1220988	200	4.9	200	95	2	1715	36	14	17	31	1.90
1222450--1222549	6	16.7	6	76	8	60	39	7	31	23	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1222450--1222549	12	8.3	12	81	4	85	39	7	31	23	1.81
1222467--1222550	3	28.0	3	77	0	87	36	5	32	25	1.80
1224439--1224483	22	2.0	22	82	0	54	40	8	11	40	1.72
1224523--1225015	183	2.7	184	95	1	893	34	15	17	32	1.92
1227862--1227934	23	3.2	23	88	0	101	34	4	21	39	1.73
1228291--1228363	23	3.2	23	86	0	92	35	4	20	39	1.72
1227659--1229134	429	3.4	430	97	0	2775	41	7	11	39	1.71
1228722--1228794	23	3.2	23	88	0	101	34	4	21	39	1.73
1232263--1232304	20	2.1	20	86	0	57	33	14	21	30	1.93
1262963--1262998	18	2.0	18	94	0	63	30	33	19	16	1.94
1263764--1263821	20	2.9	20	92	0	98	22	24	22	31	1.99
1266897--1267264	183	2.0	184	99	0	729	32	21	17	28	1.96
1267416--1267449	14	2.3	15	85	10	52	26	26	5	41	1.78
1270720--1270762	19	2.2	20	83	4	52	20	30	9	39	1.84
1271419--1271451	15	2.3	15	89	5	50	15	15	9	60	1.58
1274786--1274865	37	2.2	37	95	0	142	17	17	21	43	1.88
1279470--1279527	28	2.1	28	96	0	107	43	5	17	34	1.71
1286925--1286969	23	2.0	23	83	12	58	60	6	4	28	1.42
1290903--1290963	27	2.3	27	100	0	122	27	6	36	29	1.82
1294371--1294620	122	2.0	122	88	1	367	34	14	22	28	1.93
1296114--1296160	2	23.5	2	100	0	94	51	48	0	0	1.00
1296160--1296191	2	16.0	2	100	0	64	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1304938--1305006	31	2.2	32	84	5	88	42	17	11	28	1.84
1306631--1306671	19	2.2	19	86	8	57	34	0	2	63	1.08
1312959--1312998	21	2.0	20	85	5	53	40	7	2	50	1.44
1313528--1313603	38	2.0	38	100	0	152	23	13	2	60	1.45
1321887--1321934	23	2.1	23	100	0	96	29	31	25	14	1.95
1326138--1326237	49	2.1	48	98	1	191	32	12	16	40	1.84
1337923--1337978	24	2.3	24	93	0	94	25	21	16	37	1.93
1339209--1339365	80	1.9	82	80	5	185	32	19	19	29	1.96
1342712--1342755	21	2.1	21	86	0	61	25	0	25	50	1.50
1342951--1343093	42	3.4	42	70	14	121	38	16	14	30	1.88
1342887--1343083	87	2.3	86	82	7	240	38	16	13	31	1.87
1343936--1344021	22	3.9	22	74	8	86	33	20	19	25	1.97
1349463--1349537	30	2.5	31	85	10	109	34	8	13	44	1.73
1351058--1351120	26	2.5	24	80	15	65	58	20	1	19	1.47
1353471--1354401	165	5.8	165	83	8	1029	24	18	24	32	1.98
1353526--1354401	84	10.8	84	84	6	990	24	18	24	31	1.97
1358823--1358919	46	2.1	48	96	3	180	21	6	38	34	1.79
1359535--1360507	84	11.7	84	85	2	1088	24	19	24	31	1.98
1359535--1360482	251	3.8	253	84	4	1210	24	18	24	31	1.98
1361669--1361913	95	2.5	95	84	4	278	32	17	15	34	1.91
1364873--1364928	24	2.3	23	81	6	58	41	3	1	53	1.29
1369942--1369992	14	3.6	14	100	0	102	21	0	21	56	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1376069--1376128	28	2.1	28	84	6	77	55	25	5	15	1.60
1377680--1377722	14	3.1	14	96	3	79	74	0	11	13	1.07
1377680--1377722	21	2.1	20	95	4	77	74	0	11	13	1.07
1377878--1377965	44	2.0	46	91	6	146	72	2	7	17	1.18
1377870--1377986	44	2.4	47	78	17	134	71	1	5	20	1.16
1377900--1378009	39	2.7	39	79	9	107	73	1	9	15	1.16
1380567--1380620	20	2.7	19	75	8	63	33	31	18	16	1.93
1380691--1380859	20	8.4	20	73	4	142	38	20	17	23	1.93
1380691--1380861	40	4.2	41	89	1	238	38	21	18	22	1.94
1380691--1380861	81	2.1	81	89	2	254	38	21	18	22	1.94
1381324--1381386	21	3.1	20	84	6	83	50	17	20	11	1.76
1381417--1381513	33	2.7	35	80	13	108	11	23	20	44	1.84
1381445--1381521	20	3.9	20	85	6	104	11	23	19	45	1.83
1383413--1383492	42	1.9	42	84	5	108	22	36	17	23	1.95
1385048--1385107	19	3.2	19	92	0	93	43	25	16	15	1.86
1385103--1385229	19	7.2	19	68	18	94	13	24	18	43	1.86
1385107--1385249	33	4.2	33	81	10	178	13	23	18	43	1.87
1385173--1385229	20	2.9	20	81	2	80	14	22	19	43	1.86
1385107--1385249	72	2.1	66	87	7	196	13	23	18	43	1.87
1385140--1385280	72	1.9	73	85	1	194	17	21	20	41	1.91
1386483--1386507	9	2.8	9	100	0	50	32	20	12	36	1.89
1387505--1387763	20	12.9	19	72	13	155	20	19	22	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1387511--1387801	40	7.2	41	83	6	321	19	19	23	37	1.94
1387749--1387801	20	2.7	20	91	5	81	13	18	24	43	1.86
1388079--1388152	5	14.8	5	97	0	121	40	14	20	24	1.90
1388711--1388758	23	2.1	23	88	0	69	35	12	18	33	1.89
1389185--1389247	23	2.7	23	92	0	99	38	20	4	36	1.74
1389657--1389722	34	1.9	34	96	0	123	16	16	18	48	1.82
1389994--1390030	18	2.1	18	89	0	56	51	10	5	32	1.60
1390468--1390530	23	2.7	23	87	0	90	38	19	4	38	1.73
1390546--1390595	22	2.3	22	77	16	59	38	10	12	40	1.76
1390875--1390940	25	2.6	25	80	0	87	42	13	9	34	1.76
1393409--1394263	183	4.7	183	97	0	1624	34	17	15	33	1.91
1393409--1394263	365	2.3	366	97	0	1624	34	17	15	33	1.91
1395732--1395812	3	27.0	3	75	0	72	23	34	6	35	1.80
1395736--1395824	12	7.4	12	84	0	88	21	34	7	35	1.82
1395736--1395827	18	5.1	18	77	0	76	20	34	7	36	1.81
1395748--1395824	36	2.1	36	90	0	118	20	35	9	35	1.85
1395736--1395827	6	15.3	6	79	0	67	20	34	7	36	1.81
1397289--1398646	199	6.8	199	97	0	2493	32	15	14	37	1.89
1397289--1398646	596	2.3	597	96	0	2511	32	15	14	37	1.89
1398754--1398802	19	2.6	19	93	0	80	57	10	2	30	1.43
1400692--1400753	21	3.0	21	74	9	63	17	27	14	40	1.89
1400836--1400868	15	2.2	15	94	0	57	9	63	9	18	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1402984--1403026	20	2.3	18	85	14	61	20	16	11	51	1.75
1403170--1403216	20	2.3	20	89	10	78	17	17	10	55	1.69
1402956--1403428	181	2.6	182	88	1	689	26	16	14	42	1.86
1403495--1403981	229	2.1	228	95	0	866	39	7	8	44	1.63
1406292--1406336	2	23.5	2	86	8	58	44	0	0	55	0.99
1406319--1406426	55	2.0	53	83	10	137	51	1	2	43	1.26
1407292--1407363	31	2.2	33	83	11	96	37	4	6	51	1.48
1407292--1407379	32	2.8	31	73	15	74	36	4	9	50	1.55
1408223--1408519	126	2.3	126	83	6	348	38	16	11	34	1.84
1408268--1408573	126	2.4	128	83	6	352	37	16	11	33	1.85

Tables:   1   2   3   4   5   6   7