genome.fa.s7889.2.7.7.80.10.50.1000.7.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: VEPZ01007889.1 Hibiscus syriacus cultivar Beakdansim tig00110271_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1663484

Tables:   1   2   3   4   5   6   7   8   9   

This is table  7  of  9  ( 1005 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)
1229017--1229366	131	2.7	131	87	0	459	27	28	16	27	1.97
1229570--1229644	3	25.7	3	76	10	75	28	5	2	64	1.29
1231078--1231122	21	2.1	21	87	0	63	31	28	24	15	1.96
1232588--1232902	149	2.1	149	95	1	569	27	16	20	34	1.95
1232870--1232914	23	2.0	23	86	0	63	22	24	26	26	2.00
1236202--1236246	21	2.1	21	87	0	63	31	28	24	15	1.96
1237699--1238013	149	2.1	149	95	1	560	28	16	20	34	1.94
1237981--1238025	23	2.0	23	90	0	72	22	26	26	24	2.00
1240870--1240952	43	1.9	43	85	0	112	32	28	16	21	1.96
1241094--1241416	116	2.8	116	88	0	493	33	24	18	24	1.97
1241528--1241683	36	4.3	36	89	4	197	28	23	12	35	1.91
1241532--1241683	72	2.1	73	90	3	245	28	22	12	36	1.91
1241571--1241666	21	5.1	21	65	27	81	26	22	12	38	1.90
1241753--1241812	15	3.4	17	67	24	52	20	21	13	45	1.85
1241586--1241851	138	1.9	138	88	4	403	27	21	12	38	1.89
1241698--1241819	36	3.4	36	82	7	149	25	21	12	40	1.88
1241769--1241919	67	2.2	68	85	9	193	31	22	11	35	1.89
1241873--1242027	33	4.5	34	87	7	210	43	18	9	29	1.81
1242523--1242553	3	10.3	3	100	0	62	32	0	0	67	0.91
1248009--1248091	43	1.9	43	90	0	130	32	31	15	20	1.94
1248233--1248555	116	2.8	117	87	3	492	34	23	18	23	1.97
1248696--1248796	21	5.4	21	60	26	64	26	20	12	39	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1248666--1248817	36	4.2	36	94	0	268	28	20	13	36	1.91
1248694--1248953	137	1.9	137	81	6	321	29	19	12	38	1.88
1248832--1248988	37	4.4	36	72	9	133	28	19	12	39	1.88
1248684--1249055	173	2.1	174	84	5	493	28	20	12	38	1.89
1248939--1249088	67	2.2	68	84	9	191	30	22	10	36	1.88
1249041--1249197	33	4.6	34	86	8	196	42	18	8	29	1.81
1249206--1249456	84	3.0	83	79	2	265	30	23	19	25	1.98
1249765--1249789	3	8.3	3	100	0	50	32	0	0	68	0.90
1251589--1251632	14	3.0	14	81	18	54	65	0	0	34	0.93
1251589--1251631	17	2.6	18	85	14	65	67	0	0	32	0.91
1251949--1252211	84	3.2	83	73	8	268	24	21	25	28	1.99
1252412--1253220	106	7.6	106	94	1	1359	21	18	26	33	1.97
1258264--1258308	14	3.1	14	81	18	56	66	0	0	33	0.92
1258264--1258306	17	2.6	18	85	14	65	67	0	0	32	0.91
1259149--1259208	28	2.1	29	87	6	86	48	10	1	40	1.47
1259165--1259208	15	2.9	16	80	13	65	52	6	0	40	1.28
1259873--1259942	36	1.9	37	88	2	106	34	18	10	37	1.84
1259912--1260082	44	3.9	44	87	6	247	28	20	7	43	1.79
1259912--1260082	89	1.9	88	89	3	263	28	20	7	43	1.79
1265939--1265968	3	10.0	3	92	0	51	63	0	3	33	1.11
1266530--1266684	66	2.3	66	81	4	161	31	12	20	36	1.89
1270398--1270426	6	4.8	6	100	0	58	82	0	17	0	0.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1282915--1283095	49	3.5	51	85	9	228	20	24	17	37	1.94
1283130--1283621	159	3.1	160	86	6	716	27	26	14	31	1.95
1283114--1283621	53	9.6	54	86	6	643	28	25	14	31	1.95
1283114--1283616	210	2.4	213	87	6	725	28	25	14	31	1.95
1283122--1283729	106	5.7	107	78	12	474	27	25	15	31	1.96
1284050--1284201	37	4.1	37	90	1	225	23	17	23	35	1.95
1285272--1285516	125	2.0	122	86	5	341	23	26	17	32	1.97
1288963--1289054	21	4.4	21	90	2	123	11	21	19	46	1.82
1293228--1293418	54	3.5	54	91	0	301	21	25	17	35	1.95
1293439--1293961	55	9.6	55	91	0	818	29	25	14	30	1.94
1294406--1294548	37	3.8	37	92	0	223	23	18	22	35	1.95
1294390--1294548	74	2.1	74	88	4	232	23	18	22	35	1.96
1298426--1298455	3	10.3	3	92	7	53	63	0	0	36	0.95
1298721--1298799	15	5.4	15	68	6	54	48	0	1	50	1.08
1298687--1298784	43	2.3	43	87	3	137	51	1	1	46	1.14
1301348--1301380	16	2.0	17	88	5	50	51	0	0	48	1.00
1303386--1303468	42	2.0	42	92	2	141	40	7	2	49	1.43
1304154--1304457	151	2.0	150	90	1	484	44	12	14	28	1.82
1304896--1304940	19	2.4	19	92	3	74	42	0	20	37	1.52
1305701--1305764	23	2.8	23	83	9	94	28	26	26	18	1.98
1305787--1305992	103	2.0	103	93	0	349	36	22	13	28	1.91
1307084--1307128	21	2.1	21	87	0	63	15	24	28	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1310100--1310165	22	3.0	23	84	4	75	27	22	28	21	1.99
1310181--1310391	103	2.1	101	92	1	350	36	22	14	27	1.93
1311484--1311528	21	2.1	21	87	0	63	15	24	28	31	1.96
1314497--1314588	23	4.0	23	92	0	148	27	26	27	19	1.99
1314604--1314813	100	2.1	102	92	2	352	35	22	14	27	1.93
1315896--1315940	21	2.1	21	87	0	63	15	24	28	31	1.96
1318131--1318180	9	5.6	9	82	0	64	34	6	54	6	1.50
1318131--1318180	18	2.8	18	90	0	82	34	6	54	6	1.50
1318625--1319415	191	4.1	198	87	6	1192	44	14	14	27	1.83
1322431--1322475	23	2.0	23	86	0	63	40	17	8	33	1.81
1322348--1322595	87	2.9	87	93	1	437	32	15	12	40	1.84
1322518--1322562	23	2.0	23	90	0	72	40	20	6	33	1.78
1323335--1323378	20	2.3	19	88	7	63	52	9	18	20	1.72
1324083--1324133	23	2.4	21	81	15	68	31	0	0	68	0.90
1324393--1324442	15	3.2	16	76	18	61	48	0	18	34	1.48
1329420--1329471	18	2.9	18	91	5	79	38	17	9	34	1.82
1329825--1330185	127	2.8	128	79	5	372	40	15	12	31	1.84
1338579--1338784	21	9.4	21	73	18	161	28	0	42	29	1.56
1338578--1338816	45	5.4	45	88	3	342	28	0	41	29	1.60
1338578--1338816	88	2.7	89	91	3	374	28	0	41	29	1.60
1340068--1340127	29	2.1	29	90	0	93	31	21	28	18	1.97
1341100--1341155	28	2.0	28	85	3	76	46	5	7	41	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1341175--1341441	22	12.6	22	77	14	276	47	9	0	43	1.38
1341175--1341441	43	6.3	44	80	12	265	47	9	0	43	1.38
1350146--1350204	26	2.3	27	79	8	68	37	15	3	44	1.63
1351281--1351324	3	14.7	3	90	0	70	31	0	31	36	1.58
1351922--1351995	21	3.5	21	96	0	130	29	32	20	17	1.95
1352018--1352082	23	2.8	23	86	9	96	20	23	16	40	1.92
1352867--1352892	6	4.3	6	100	0	52	0	19	46	34	1.50
1355037--1355089	21	2.5	21	81	0	70	20	22	18	37	1.94
1355079--1355144	20	3.3	20	86	0	105	40	18	18	22	1.91
1355138--1355204	20	3.3	20	87	0	98	32	28	16	22	1.95
1356025--1356078	24	2.2	24	93	0	90	20	18	20	40	1.91
1358934--1359011	21	3.6	22	71	10	63	20	20	35	23	1.96
1358931--1359038	42	2.6	41	75	7	110	23	19	36	21	1.95
1359520--1359608	20	4.4	20	88	0	124	38	22	19	20	1.94
1359633--1359738	40	2.8	36	81	14	108	17	20	20	40	1.91
1359653--1359795	20	7.5	20	82	9	165	18	19	21	40	1.91
1359625--1359795	93	1.8	93	93	0	297	17	19	20	42	1.90
1359667--1359760	33	2.6	35	78	11	93	15	21	20	42	1.89
1360322--1360371	18	2.8	18	93	0	91	18	12	42	28	1.85
1360322--1360387	18	3.7	18	86	11	75	18	12	40	28	1.86
1361704--1361834	58	2.2	59	84	2	165	44	22	19	13	1.86
1361704--1361851	20	7.5	20	83	1	147	41	23	18	15	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1361701--1361882	78	2.4	75	90	5	278	44	22	18	14	1.86
1362229--1362285	22	2.6	22	91	0	87	28	12	36	22	1.90
1363760--1363802	16	2.7	15	82	13	50	39	2	0	58	1.11
1363767--1363831	23	2.9	21	74	19	60	41	3	0	55	1.15
1363773--1363855	22	3.7	22	77	6	71	39	2	0	57	1.12
1363819--1363861	15	2.8	15	89	3	59	39	0	0	60	0.97
1369503--1369569	29	2.3	29	89	0	98	20	5	13	59	1.55
1375258--1375312	16	3.4	16	77	7	58	58	0	0	41	0.98
1375244--1375330	31	2.8	31	79	8	90	58	0	0	41	0.98
1376048--1376540	200	2.5	196	81	5	542	30	14	14	40	1.86

Tables:   1   2   3   4   5   6   7   8   9