genome.fa.s8094.2.7.7.80.10.50.1000.7.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: VEPZ01008094.1 Hibiscus syriacus cultivar Beakdansim tig00110610_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9952466

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  ( 5090 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)
1231311--1231404	41	2.3	40	87	1	125	20	19	19	41	1.91
1231403--1231446	21	2.1	21	86	0	61	38	15	27	18	1.91
1240838--1240863	13	2.0	13	100	0	52	23	0	38	38	1.55
1242150--1242188	20	2.0	20	85	10	53	15	5	35	43	1.69
1243228--1243266	18	2.2	18	100	0	78	33	20	15	30	1.94
1243232--1243274	18	2.4	18	92	0	68	34	23	13	27	1.93
1243630--1243669	12	3.2	12	85	3	53	72	0	25	2	0.97
1245700--1245731	3	10.7	3	93	0	55	0	31	3	65	1.08
1254764--1254821	32	1.9	30	83	13	75	58	5	10	25	1.52
1261752--1261809	28	2.1	28	93	0	98	13	5	29	51	1.63
1263269--1263330	27	2.3	27	100	0	124	51	3	3	41	1.34
1263269--1263349	27	3.0	26	89	7	92	49	6	3	40	1.45
1268578--1268614	9	3.8	10	86	13	51	35	40	2	21	1.68
1271940--1271973	17	2.0	17	88	11	52	47	0	5	47	1.26
1273162--1273189	6	4.7	6	100	0	56	32	0	0	67	0.91
1278151--1278400	87	2.9	87	97	0	464	42	10	14	32	1.79
1281912--1282157	120	2.1	119	93	0	420	36	15	14	32	1.88
1282031--1282523	183	2.7	183	95	1	873	33	16	14	35	1.90
1282214--1282822	303	2.0	303	96	1	1114	34	16	14	34	1.89
1282397--1282643	120	2.1	120	92	1	415	37	15	13	33	1.87
1281747--1282922	486	2.4	486	96	0	2169	33	16	14	34	1.89
1282517--1282922	183	2.2	182	93	2	688	33	16	14	35	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1284130--1284181	6	8.7	6	89	0	68	21	32	7	38	1.82
1284130--1284181	12	4.3	12	92	0	77	21	32	7	38	1.82
1285622--1286385	200	3.8	200	93	0	1271	30	18	14	36	1.91
1286605--1286665	19	3.3	18	88	2	59	52	11	1	34	1.47
1286617--1286665	19	2.6	19	96	0	89	55	10	2	32	1.45
1288457--1288522	33	2.0	33	87	0	96	22	46	0	30	1.52
1288604--1288669	33	2.0	33	84	0	87	22	45	0	31	1.53
1288451--1288744	147	2.0	147	97	0	561	21	38	3	36	1.71
1288703--1288767	21	3.1	21	88	0	94	18	29	10	41	1.84
1291156--1291202	20	2.4	18	80	19	58	19	14	10	55	1.68
1290947--1291415	176	2.6	177	87	3	636	26	16	14	42	1.86
1292307--1292340	5	7.0	5	86	6	52	44	0	0	55	0.99
1292307--1292340	14	2.4	14	90	5	50	44	0	0	55	0.99
1293393--1293435	14	3.0	14	82	3	50	23	13	25	37	1.92
1294084--1294125	17	2.3	18	88	8	59	54	0	4	40	1.21
1294376--1294416	18	2.4	18	88	8	59	31	26	19	21	1.97
1294963--1295014	19	2.7	19	88	5	70	44	25	19	11	1.84
1294960--1295025	18	3.5	19	81	6	80	46	25	16	10	1.79
1295021--1295070	18	2.7	19	87	3	75	12	20	22	46	1.83
1295061--1295120	14	3.9	14	72	19	57	10	28	23	38	1.87
1295042--1295137	33	2.9	33	84	1	120	11	22	21	43	1.85
1295105--1295143	20	2.0	20	89	0	60	12	20	15	51	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1296794--1296967	93	1.9	87	87	6	249	21	12	17	48	1.80
1297241--1297391	21	7.2	21	62	10	58	22	37	19	21	1.95
1297189--1297391	42	4.8	42	80	2	203	22	36	18	22	1.95
1297186--1297361	84	2.1	84	100	0	352	21	38	17	23	1.93
1297186--1297391	84	2.5	84	92	1	297	21	36	18	22	1.95
1298713--1298748	13	2.6	14	86	4	56	27	0	25	47	1.52
1298909--1299032	33	3.9	32	81	12	157	15	22	19	42	1.88
1298905--1298968	19	3.6	19	70	20	66	12	25	20	42	1.87
1298902--1299031	66	2.0	63	91	4	206	16	22	19	41	1.90
1301487--1301539	23	2.2	24	86	3	72	41	20	16	20	1.90
1302311--1302362	21	2.5	21	87	3	70	38	17	23	21	1.93
1302351--1302429	20	3.9	20	77	9	70	35	22	18	22	1.96
1302390--1302437	20	2.5	19	80	6	69	35	22	18	22	1.96
1302648--1302715	20	3.4	20	72	8	75	39	23	20	16	1.91
1302632--1302735	40	2.9	34	77	15	109	40	22	22	15	1.91
1302925--1302961	14	2.6	14	86	0	56	48	21	0	29	1.50
1304845--1304905	14	3.5	19	70	22	62	50	19	18	11	1.76
1304864--1304921	14	3.9	14	79	16	71	48	24	17	10	1.78
1304818--1304926	32	3.4	33	91	5	172	48	22	18	11	1.79
1304955--1305012	14	3.9	14	79	16	71	10	17	24	48	1.78
1304942--1305028	32	2.7	33	90	3	140	14	18	19	47	1.83
1305532--1305576	18	2.5	18	92	0	81	13	13	44	28	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1306671--1306724	24	2.2	24	83	6	65	53	16	9	20	1.70
1306863--1306919	20	2.9	20	84	2	62	43	21	17	17	1.88
1307408--1307445	19	2.0	20	94	5	69	28	21	31	18	1.97
1307466--1307519	20	2.7	20	97	0	99	25	18	24	31	1.97
1307590--1307630	21	2.0	21	85	0	55	34	29	17	19	1.94
1316602--1316643	19	2.2	19	86	4	57	21	26	26	26	1.99
1323770--1323836	9	7.1	9	78	9	71	16	25	31	26	1.96
1323777--1323834	19	3.0	19	90	7	82	18	24	31	25	1.98
1323831--1323859	14	2.1	14	100	0	58	20	51	20	6	1.70
1325446--1325500	3	17.7	3	88	7	67	65	0	1	32	1.03
1328666--1328721	24	2.3	24	90	0	85	46	3	33	16	1.64
1330373--1330397	13	1.9	13	100	0	50	8	28	0	64	1.22
1330050--1330511	231	2.0	231	94	4	826	21	24	15	38	1.92
1336580--1336649	3	23.7	3	95	2	106	38	0	61	0	0.96
1336648--1336677	3	9.7	3	92	7	51	66	0	33	0	0.92
1338882--1338933	23	2.3	23	79	0	68	26	11	11	50	1.73
1346479--1346511	16	2.1	16	88	11	50	54	33	6	6	1.50
1346688--1346803	60	1.9	61	81	11	141	31	22	4	42	1.73
1346999--1347174	60	3.0	60	76	9	164	43	5	17	34	1.72
1348895--1348980	29	3.0	29	96	0	154	24	20	12	41	1.87
1351165--1351251	31	2.8	30	81	10	95	54	3	1	41	1.25
1351160--1351227	19	3.5	20	73	15	54	54	1	2	41	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1354395--1354442	13	3.7	13	94	0	87	27	20	18	33	1.96
1354421--1354585	84	2.0	85	92	1	278	30	21	17	30	1.96
1365627--1365670	23	1.9	23	100	0	88	13	25	18	43	1.86
1368451--1368517	32	2.1	32	88	0	98	29	31	1	37	1.67
1369896--1369945	16	3.1	16	77	13	57	48	2	2	48	1.24
1369883--1369945	33	1.9	33	84	9	85	42	4	1	50	1.32
1369848--1369999	78	1.9	78	95	0	277	39	5	4	50	1.45
1370031--1370069	17	2.3	17	86	0	51	48	2	0	48	1.15
1375558--1375596	18	2.0	20	90	9	64	53	2	0	43	1.14
1375811--1375881	20	3.5	20	69	7	63	29	25	21	23	1.99
1376061--1376126	22	3.0	21	82	8	78	27	37	13	21	1.91
1376463--1376553	20	4.6	20	84	1	94	14	18	21	45	1.85
1376517--1376560	20	2.2	20	91	0	70	11	13	20	54	1.69
1378431--1378534	20	5.5	20	73	17	105	41	23	18	17	1.90
1378432--1378553	54	2.3	54	85	2	165	43	22	18	15	1.88
1378577--1378625	20	2.5	20	79	0	62	20	18	24	36	1.94
1379136--1379227	42	2.2	42	82	3	105	25	35	17	21	1.95
1380599--1380634	14	2.6	14	90	0	54	30	0	22	47	1.52
1380831--1380914	33	2.5	33	92	1	132	16	22	16	44	1.87
1380897--1380990	20	4.7	20	89	2	145	18	22	26	32	1.97
1383392--1383445	24	2.2	24	93	0	90	40	20	18	20	1.91
1383392--1383459	24	2.8	24	84	0	64	38	20	17	23	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1384288--1384334	20	2.3	20	88	0	67	23	19	25	31	1.98
1384321--1384454	20	6.7	20	86	1	187	20	20	20	38	1.93
1384450--1384496	21	2.2	21	80	0	58	40	14	23	21	1.90
1394479--1394525	23	2.0	23	87	0	67	19	21	8	51	1.73
1394489--1394536	23	2.1	23	84	3	62	14	18	8	58	1.61
1399403--1399435	17	1.9	17	88	11	50	54	9	0	36	1.32
1401229--1401284	28	1.9	28	85	7	76	55	19	1	23	1.53
1401492--1401539	20	2.4	19	89	6	69	27	0	2	70	0.98
1401988--1402043	16	3.7	15	81	11	69	78	5	16	0	0.92
1410310--1410381	24	3.0	23	82	6	90	22	8	18	51	1.72

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