genome.fa.s9633.2.7.7.80.10.50.1000.7.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: VEPZ01009633.1 Hibiscus syriacus cultivar Beakdansim tig00117032_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2608659

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  7  of  13  ( 1552 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)
1231327--1231380	26	2.1	26	96	0	99	22	14	3	59	1.51
1243842--1243876	17	2.1	17	94	0	61	31	11	22	34	1.90
1258858--1258942	35	2.5	33	76	14	82	27	9	10	52	1.66
1262501--1262600	42	2.4	42	93	0	173	27	31	20	22	1.98
1264558--1264585	2	14.0	2	100	0	56	50	0	0	50	1.00
1267175--1267216	21	2.0	21	95	0	75	33	35	11	19	1.88
1271380--1271454	35	2.1	36	85	4	100	33	0	21	45	1.52
1274528--1274584	22	2.8	19	73	14	51	28	5	19	47	1.71
1274764--1274788	13	1.9	13	100	0	50	0	40	0	60	0.97
1283167--1283238	31	2.4	31	85	2	101	25	29	6	38	1.82
1284053--1284123	26	2.8	25	74	18	65	73	2	9	14	1.20
1284068--1284126	27	2.2	26	77	11	66	74	3	6	15	1.16
1284618--1284648	12	2.6	12	89	0	53	9	58	29	3	1.46
1285248--1285278	16	2.0	15	93	6	53	12	25	41	19	1.87
1285426--1285485	4	15.0	4	75	6	59	68	0	6	25	1.14
1285420--1285485	25	2.7	24	83	4	78	66	1	7	24	1.26
1285489--1285695	35	5.8	35	88	7	274	50	7	0	41	1.35
1285559--1285653	13	7.6	13	64	20	51	49	8	0	42	1.33
1285528--1285811	73	4.0	71	80	8	278	47	7	2	42	1.43
1285489--1285812	35	9.0	35	78	8	246	47	7	2	42	1.43
1285491--1285854	35	10.1	35	77	11	219	48	7	2	41	1.44
1286499--1287307	84	9.8	84	78	6	710	25	19	23	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1286521--1287236	85	8.6	82	80	4	677	25	20	23	30	1.98
1286502--1287239	169	4.4	168	90	3	1037	25	20	23	30	1.98
1290649--1290693	19	2.4	19	92	3	74	66	8	13	11	1.44
1291311--1291343	17	1.9	17	88	11	50	69	9	15	6	1.34
1292403--1292473	26	2.8	25	74	18	65	73	2	9	14	1.20
1292418--1292476	27	2.2	26	77	11	66	74	3	6	15	1.16
1292968--1292998	12	2.6	12	89	0	53	9	58	29	3	1.46
1293598--1293628	16	2.0	15	93	6	53	12	25	41	19	1.87
1293776--1293835	4	15.0	4	75	6	59	68	0	6	25	1.14
1293770--1293835	25	2.7	24	83	4	78	66	1	7	24	1.26
1293839--1294041	35	5.8	35	89	6	279	50	7	0	41	1.35
1293878--1294158	35	8.0	36	80	8	280	47	7	2	43	1.44
1293841--1294200	35	10.1	35	76	11	215	48	7	2	41	1.44
1296445--1296497	17	3.2	17	81	5	63	41	1	0	56	1.10
1296445--1296491	16	2.8	17	83	6	60	42	2	0	55	1.12
1300403--1300488	42	2.0	42	93	0	145	34	13	12	38	1.84
1302871--1302961	29	3.1	29	76	6	103	32	23	6	37	1.81
1304406--1304443	17	2.2	17	100	0	76	21	10	18	50	1.76
1307615--1307662	20	2.4	20	85	0	60	27	25	20	27	1.99
1310720--1310754	18	1.9	18	88	0	52	54	22	2	20	1.58
1310914--1311112	20	10.9	20	70	18	128	35	22	18	23	1.95
1310914--1311037	54	2.3	54	91	0	194	37	24	14	23	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1310976--1311146	34	4.8	35	79	12	170	35	22	20	21	1.96
1311010--1311152	74	1.9	74	86	0	205	33	20	21	24	1.97
1311151--1311208	20	2.9	20	78	0	71	12	15	25	46	1.80
1312755--1312864	42	2.6	42	81	5	116	23	18	38	20	1.93
1313360--1313436	20	3.8	20	92	0	118	37	22	19	20	1.94
1313479--1313524	20	2.3	20	92	0	74	17	21	26	34	1.95
1314033--1314107	21	3.8	20	70	16	57	13	13	42	30	1.82
1315440--1315526	20	4.5	19	81	7	86	50	21	14	12	1.76
1316130--1316333	20	10.1	20	79	5	203	28	22	25	23	1.99
1316576--1316623	18	2.7	18	71	12	53	29	4	0	66	1.10
1318626--1318655	12	2.6	12	94	5	53	80	0	0	20	0.72
1318694--1318747	17	3.1	17	81	2	63	74	0	11	14	1.08
1318694--1318758	17	3.8	16	76	11	58	72	0	12	15	1.13
1318885--1318980	35	2.9	32	83	9	104	66	1	4	28	1.16
1319027--1319077	25	2.0	27	84	7	70	58	0	3	37	1.16
1320541--1320799	110	2.4	108	84	3	326	23	19	23	33	1.97
1321516--1321673	68	2.4	65	84	8	194	37	8	21	32	1.84
1321503--1321699	65	2.9	68	82	7	206	38	8	21	30	1.84
1321585--1321970	102	3.8	101	81	5	395	38	11	19	30	1.88
1321648--1321735	36	2.4	36	92	0	149	36	12	23	27	1.91
1321751--1321837	37	2.4	36	84	1	102	40	13	18	27	1.88
1322120--1322440	106	3.0	106	88	0	462	22	19	24	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1322749--1323025	138	2.0	138	97	0	518	32	20	19	27	1.97
1323174--1323264	32	2.8	33	89	1	139	38	18	12	30	1.87
1324182--1324319	69	2.0	69	85	2	188	26	13	23	37	1.91
1324398--1324439	14	3.2	13	83	9	59	2	11	2	83	0.84
1324380--1324430	21	2.3	21	81	15	59	5	11	1	80	0.97
1324398--1324450	26	2.1	26	85	3	72	1	11	5	81	0.94
1327529--1327605	21	3.4	22	74	20	61	76	3	3	15	1.08
1327539--1327587	25	2.0	25	88	8	73	75	6	6	12	1.17
1327574--1327630	27	2.1	27	84	12	73	75	0	3	21	0.95
1327574--1327617	17	2.4	18	85	7	54	77	0	2	20	0.88
1327859--1327928	35	2.1	34	84	7	90	68	1	5	24	1.19
1327959--1328063	2	53.5	2	82	7	126	50	3	2	42	1.35
1327997--1328075	26	3.0	27	76	5	74	56	0	3	39	1.17
1335025--1335049	4	6.2	4	100	0	50	76	0	0	24	0.80
1335209--1335246	13	2.7	14	88	8	51	57	10	2	28	1.45
1336101--1336167	34	1.9	34	82	14	84	20	11	19	47	1.81
1339025--1339089	3	21.0	3	81	6	76	38	0	1	60	1.07
1340628--1340664	19	1.9	19	88	0	56	32	0	2	64	1.07
1341314--1341365	20	2.6	21	76	11	56	28	5	0	65	1.16
1348364--1348588	114	2.0	114	90	0	351	31	15	22	31	1.94
1350659--1350770	54	2.1	54	89	0	170	38	16	23	22	1.93
1351135--1351214	22	3.6	22	70	0	70	36	12	11	40	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1351891--1353364	76	19.5	76	97	0	2762	21	20	22	35	1.96
1351891--1353364	227	6.5	227	97	0	2756	21	20	22	35	1.96
1353492--1353556	3	21.0	3	81	6	76	38	0	1	60	1.07
1355030--1355054	4	6.2	4	100	0	50	24	0	0	76	0.80
1355096--1355132	19	1.9	19	88	0	56	32	0	2	64	1.07
1359354--1359802	229	2.0	227	95	0	799	44	7	7	40	1.61
1359868--1359913	20	2.3	19	89	10	74	54	10	17	17	1.70
1360035--1360081	20	2.4	19	82	10	67	53	10	17	19	1.72
1360044--1360086	20	2.3	19	88	11	63	51	11	16	20	1.75
1362309--1362373	21	3.1	21	80	6	69	40	15	29	15	1.88
1362407--1362472	33	2.0	33	93	0	114	30	0	46	22	1.52
1365021--1365169	23	6.5	23	87	0	208	34	5	19	40	1.74
1365021--1365169	46	3.2	46	94	0	262	34	5	19	40	1.74
1365592--1365628	18	2.1	18	89	0	56	32	5	10	51	1.60
1365584--1365630	24	2.0	24	86	0	67	34	4	14	46	1.64
1366355--1366427	23	3.2	23	84	0	92	35	4	20	39	1.72
1376438--1376464	11	2.5	11	100	0	54	48	29	7	14	1.71
1376496--1376704	20	10.4	21	78	11	181	38	22	16	22	1.93
1376496--1376683	40	4.7	41	78	16	207	38	22	16	22	1.93
1376674--1376763	41	2.3	38	84	7	110	34	21	13	31	1.92
1376557--1376743	80	2.3	80	81	7	202	36	21	15	25	1.93
1376697--1376762	18	3.5	18	82	12	71	31	19	13	34	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1377531--1377564	12	2.8	12	90	0	50	55	29	0	14	1.40
1382018--1382116	21	4.7	21	80	8	112	21	21	35	22	1.96
1381998--1382116	42	2.8	42	83	5	141	21	21	36	21	1.96
1384720--1384770	22	2.4	21	80	6	59	25	13	41	19	1.88
1384726--1384782	22	2.6	22	80	0	69	22	15	40	21	1.91
1384892--1385081	20	9.4	20	77	6	147	18	15	24	41	1.89
1384914--1384967	21	2.6	21	88	2	74	22	9	25	42	1.83
1385075--1385121	20	2.3	20	100	0	94	23	10	36	29	1.89
1389208--1389290	34	2.5	33	94	2	139	33	9	18	38	1.83
1389211--1389300	34	2.6	33	87	6	119	35	10	15	38	1.81

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13