genome.fa.s8029.2.7.7.80.10.50.1000.7.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: VEPZ01008029.1 Hibiscus syriacus cultivar Beakdansim tig00110505_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3983240

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  7  of  18  ( 2124 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)
1246270--1246307	20	1.9	20	94	0	67	26	23	18	31	1.97
1246315--1246455	64	2.2	63	79	7	151	25	22	19	32	1.97
1249296--1249437	18	7.9	18	86	0	203	28	32	19	19	1.96
1249296--1249437	54	2.6	54	93	0	239	28	32	19	19	1.96
1259147--1259184	17	2.2	16	90	9	58	10	0	5	84	0.77
1259264--1259309	19	2.3	20	96	3	85	13	4	6	76	1.14
1259071--1259607	114	4.7	115	87	5	768	39	5	7	47	1.56
1259379--1259422	18	2.4	19	88	3	63	15	2	4	77	1.04
1259070--1259607	225	2.4	227	89	4	807	39	5	7	47	1.56
1259489--1259539	19	2.7	19	84	0	66	13	5	9	70	1.32
1287391--1287428	14	2.7	14	84	8	51	47	5	15	31	1.68
1287891--1287975	21	3.9	21	74	7	80	20	24	29	25	1.99
1287914--1287958	23	2.0	23	86	0	63	22	22	28	26	1.99
1291737--1291776	21	1.9	21	85	10	55	35	7	2	55	1.42
1298543--1299111	301	1.9	302	92	1	971	32	11	21	34	1.89
1299078--1299122	23	2.0	23	90	0	72	28	24	24	22	1.99
1299090--1299141	23	2.3	23	83	6	61	40	21	15	23	1.91
1300488--1300581	38	2.5	37	91	5	152	10	10	40	38	1.75
1300271--1301134	249	3.4	254	86	6	1207	23	11	28	36	1.90
1300998--1301086	38	2.4	37	83	9	126	14	11	37	37	1.82
1301651--1301695	17	2.8	16	82	3	63	28	31	4	35	1.77
1306549--1306648	23	4.4	23	88	5	143	22	17	28	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1323160--1323198	18	2.3	16	86	8	51	56	10	0	33	1.33
1326631--1326677	2	23.5	2	95	0	85	46	2	0	51	1.13
1326829--1326877	25	2.0	24	84	15	64	57	10	4	28	1.50
1327123--1327211	30	3.1	29	82	10	96	61	4	13	20	1.49
1327765--1327796	10	3.2	10	95	0	55	9	25	59	6	1.52
1327765--1327803	10	3.9	10	93	0	51	10	25	58	5	1.51
1328539--1328581	3	15.0	3	80	9	54	72	2	0	25	0.97
1328731--1328846	40	2.8	40	74	11	110	25	18	31	25	1.98
1328765--1329201	134	3.3	134	89	2	628	24	18	31	26	1.98
1329134--1329293	43	3.5	43	74	15	160	25	19	31	23	1.98
1329114--1329310	94	2.1	94	95	0	349	24	17	30	26	1.97
1329114--1329310	43	4.2	47	69	20	144	24	17	30	26	1.97
1329507--1329639	36	3.8	33	77	14	126	39	12	15	31	1.85
1329507--1329642	74	1.9	72	85	8	188	38	12	15	33	1.85
1329798--1329857	30	2.0	31	86	3	86	46	8	11	33	1.70
1330412--1330630	106	2.1	104	81	5	242	41	10	15	31	1.82
1330976--1331032	10	5.6	10	91	2	87	24	8	24	42	1.83
1330985--1331082	4	23.5	4	70	22	51	27	7	21	43	1.78
1330985--1331051	14	4.6	14	76	7	62	26	7	20	44	1.78
1330976--1331039	30	2.1	31	88	2	94	26	7	21	43	1.80
1331024--1331077	22	2.5	22	90	6	83	31	5	16	46	1.70
1331015--1331073	18	3.3	18	81	9	75	30	6	16	45	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1332264--1332318	11	4.7	11	80	12	56	3	16	3	76	1.07
1332896--1332934	20	2.0	20	89	0	60	38	15	15	30	1.88
1333909--1334092	64	2.9	64	82	4	185	33	20	20	26	1.97
1334370--1334429	27	2.3	26	78	18	63	40	8	16	35	1.79
1334440--1334475	12	3.0	12	87	0	54	30	8	25	36	1.85
1334620--1334674	15	3.7	15	97	0	101	16	27	27	29	1.97
1340848--1341024	64	2.8	64	82	5	214	32	22	19	25	1.98
1341331--1341366	12	3.0	12	87	0	54	30	8	25	36	1.85
1342614--1342653	20	2.0	20	85	5	53	50	17	15	17	1.79
1345189--1345237	25	2.0	24	84	15	64	57	10	4	28	1.50
1347605--1347629	12	2.1	12	100	0	50	52	24	8	16	1.70
1347656--1347697	20	2.1	20	90	0	66	28	30	9	30	1.89
1347723--1347820	20	4.7	21	75	13	78	31	26	14	27	1.95
1347723--1347820	41	2.4	40	73	11	99	31	26	14	27	1.95
1347804--1347919	20	5.8	20	70	11	67	29	24	12	34	1.91
1347825--1347916	40	2.3	40	83	3	105	32	25	11	30	1.92
1347854--1347931	40	2.0	40	84	5	104	30	20	12	35	1.90
1348875--1348921	24	2.0	24	91	0	76	27	19	17	36	1.93
1351201--1351242	6	7.0	6	88	0	66	61	19	2	16	1.44
1351209--1351249	18	2.3	18	95	0	73	56	24	2	17	1.53
1351462--1351535	29	2.6	29	80	0	85	32	12	21	33	1.90
1351574--1351618	20	2.2	20	92	0	72	17	20	26	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1352972--1353048	21	3.7	21	75	3	66	23	14	36	25	1.93
1354124--1354162	20	2.0	20	89	0	60	23	15	17	43	1.87
1354649--1354687	20	2.0	20	85	5	53	41	12	15	30	1.85
1355413--1355459	24	1.9	24	86	4	67	40	8	21	29	1.83
1355547--1355658	36	3.2	36	64	31	96	16	14	15	54	1.72
1355541--1355722	70	2.6	70	92	2	305	17	13	16	52	1.74
1358438--1358477	20	2.0	20	85	5	53	57	0	0	42	0.98
1359342--1359519	63	2.7	66	78	6	204	37	12	7	42	1.73
1359679--1359729	26	1.9	27	88	4	77	41	11	9	37	1.75
1359421--1359744	96	3.4	93	88	4	461	38	14	9	37	1.78
1368313--1368403	41	2.2	41	82	5	112	43	13	17	25	1.85
1368941--1369527	81	7.3	81	89	3	855	35	11	22	30	1.89
1368941--1369527	241	2.4	242	90	3	905	35	11	22	30	1.89
1369587--1369703	46	2.5	46	92	0	189	45	12	21	20	1.84
1370039--1370067	4	7.2	4	100	0	58	75	0	0	24	0.80
1370203--1370275	29	2.5	29	82	8	78	53	5	15	26	1.63
1370846--1370883	3	12.7	3	94	0	67	65	0	2	31	1.06
1371492--1371970	134	3.6	133	86	2	602	24	14	31	29	1.95
1371975--1372348	67	5.6	67	92	0	599	40	14	17	28	1.88
1375567--1375652	42	2.0	42	97	0	163	36	6	19	37	1.79
1378455--1378532	19	3.8	20	77	15	70	16	25	33	24	1.96
1378455--1378534	20	3.9	20	76	13	65	16	26	32	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1388822--1388900	19	4.2	19	98	1	151	16	10	30	43	1.81
1400564--1400600	15	2.5	15	90	0	56	37	18	18	24	1.94
1403074--1403114	21	2.0	21	86	13	59	51	2	12	34	1.52
1406922--1406975	23	2.4	23	90	3	83	24	35	22	18	1.96
1406916--1406976	23	2.7	22	82	5	77	24	31	24	19	1.98
1406916--1406998	22	3.8	22	76	10	80	25	32	24	18	1.97
1409191--1409220	15	2.0	15	93	0	51	43	0	30	26	1.55
1409232--1409263	16	2.0	16	100	0	64	31	12	6	50	1.65
1411739--1411867	55	2.4	54	89	5	192	51	11	12	24	1.73
1412145--1412171	7	3.9	7	100	0	54	55	0	0	44	0.99
1413589--1413628	10	4.0	10	90	0	53	0	22	20	57	1.41
1417446--1417515	31	2.3	31	89	0	104	35	20	21	22	1.96
1422247--1422330	42	2.0	42	92	0	141	34	17	16	30	1.93
1424656--1424751	39	2.4	39	82	5	113	14	42	2	40	1.57
1429867--1429957	39	2.3	39	81	9	105	15	41	2	40	1.59
1430691--1430731	2	20.5	2	94	0	73	46	0	0	53	1.00
1430764--1430831	28	2.3	30	92	5	113	42	10	5	41	1.63
1430857--1430896	18	2.2	18	86	8	55	50	10	7	32	1.64
1432905--1432940	16	2.2	16	95	0	63	38	5	27	27	1.79
1432943--1433014	37	1.9	37	86	5	101	25	15	23	36	1.94
1437616--1437662	7	5.8	9	74	20	50	38	6	29	25	1.81
1437613--1437663	16	3.2	16	91	2	86	37	5	29	27	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1443466--1443507	18	2.2	20	87	8	61	52	4	0	42	1.22
1447131--1447191	22	2.8	21	85	9	77	24	4	14	55	1.59
1447139--1447191	22	2.4	22	87	6	81	22	5	15	56	1.60
1453994--1454052	23	2.9	19	85	12	66	22	33	27	16	1.95
1460291--1460338	15	3.2	15	75	0	51	41	39	4	14	1.65
1460269--1460338	30	2.3	30	92	4	115	41	37	7	14	1.73
1461379--1461405	10	2.7	10	100	0	54	0	40	0	59	0.98
1462679--1462720	21	2.0	22	81	13	52	54	2	2	40	1.26
1469073--1469143	15	4.8	15	75	3	72	46	4	15	33	1.65
1469067--1469143	30	2.6	29	83	4	100	44	3	15	36	1.65

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18