genome.fa.s8301.2.7.7.80.10.50.1000.7.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: VEPZ01008301.1 Hibiscus syriacus cultivar Beakdansim tig00110987_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3376434

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  ( 2065 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)
1237634--1237695	26	2.3	28	83	10	76	53	3	9	33	1.50
1239029--1239140	3	37.7	3	72	12	79	62	0	1	35	1.06
1239074--1239140	23	2.8	22	77	18	71	67	0	1	31	1.00
1239030--1239140	17	5.9	20	71	20	73	62	0	1	36	1.06
1240561--1240597	15	2.5	15	86	0	56	5	64	18	10	1.43
1243985--1244216	112	2.1	111	90	0	374	46	16	16	20	1.83
1246754--1246787	17	2.0	17	88	0	50	44	5	0	50	1.26
1249178--1249232	2	27.5	2	92	0	92	45	0	3	50	1.19
1253523--1253677	77	2.0	77	96	0	283	29	16	21	32	1.95
1257960--1258006	21	2.2	21	92	0	85	29	19	19	31	1.96
1258358--1258430	22	3.3	22	82	3	92	21	32	24	20	1.97
1258346--1258429	23	3.7	23	80	3	89	23	30	26	19	1.98
1261674--1261762	15	5.9	15	78	0	97	62	10	2	24	1.38
1261674--1261793	30	3.8	30	82	5	132	62	11	2	23	1.41
1261743--1261791	20	2.5	20	82	0	62	63	12	2	22	1.39
1263032--1263260	102	2.3	100	84	6	291	27	11	24	35	1.91
1264122--1264180	24	2.6	22	75	19	68	33	20	16	28	1.95
1268001--1268030	11	2.7	11	100	0	60	33	36	0	30	1.58
1273683--1274152	192	2.5	191	83	4	581	30	19	15	34	1.93
1276070--1276101	7	4.6	7	100	0	64	84	0	0	15	0.63
1285891--1285939	20	2.5	20	96	0	89	48	8	12	30	1.69
1287608--1287633	2	13.0	2	100	0	52	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)
1289665--1289718	3	17.7	3	88	3	81	35	1	1	61	1.18
1291721--1292090	131	2.8	130	85	2	499	32	10	16	40	1.82
1295626--1295678	26	2.0	26	88	7	79	43	1	5	49	1.37
1295649--1295943	36	8.3	36	77	16	296	47	3	6	43	1.46
1295696--1295759	27	2.3	28	89	5	94	45	4	7	42	1.54
1295723--1295913	75	2.5	74	91	4	310	48	4	5	42	1.45
1295957--1295987	3	10.3	3	100	0	62	32	0	0	67	0.91
1297492--1297516	12	2.1	12	100	0	50	16	0	8	76	1.02
1297463--1297547	41	2.1	38	87	8	116	17	2	8	71	1.21
1302684--1304036	85	15.9	85	86	1	1668	35	21	17	25	1.95
1302684--1304036	171	7.9	171	86	1	1710	35	21	17	25	1.95
1304605--1305008	36	11.5	37	79	13	378	46	3	6	44	1.44
1304683--1304746	27	2.3	28	89	5	94	45	4	7	42	1.54
1304836--1304931	33	2.8	33	83	10	106	52	5	4	38	1.43
1304787--1304977	35	5.5	33	75	20	108	48	3	5	41	1.44
1305006--1305070	18	3.7	18	75	17	57	26	3	3	67	1.20
1306423--1306463	18	2.2	18	91	4	64	4	7	0	87	0.65
1306574--1306598	12	2.1	12	100	0	50	16	0	8	76	1.02
1306580--1306644	27	2.3	27	84	5	85	15	1	6	76	1.05
1306573--1306639	21	3.3	21	78	15	70	16	2	7	73	1.19
1306592--1306658	31	2.0	35	86	11	97	16	4	5	73	1.20
1308481--1308839	131	2.7	131	87	0	520	31	8	17	41	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1309993--1310064	31	2.3	31	87	0	108	33	20	16	29	1.95
1313204--1313271	3	22.0	3	82	5	82	60	0	0	39	0.97
1313408--1313822	76	5.5	76	96	0	749	35	22	19	22	1.96
1313825--1314149	166	2.0	166	90	2	510	38	12	13	35	1.83
1314665--1314715	22	2.3	22	86	0	75	39	15	9	35	1.81
1317127--1317346	114	1.9	114	93	0	377	30	21	15	32	1.94
1323844--1323896	19	2.8	18	78	21	56	67	1	5	24	1.22
1323879--1323931	20	2.7	20	75	11	56	67	0	5	26	1.12
1324374--1324434	23	2.6	25	84	7	74	52	0	1	45	1.10
1324661--1324690	2	15.0	2	92	0	51	46	0	0	53	1.00
1324691--1324759	3	23.3	3	78	14	72	69	1	1	27	1.05
1324694--1324759	20	3.3	20	81	12	73	69	1	1	27	1.06
1324691--1324781	12	7.2	12	73	16	67	65	2	3	28	1.20
1324840--1324875	18	2.0	18	100	0	72	55	0	11	33	1.35
1326128--1326195	3	22.0	3	79	5	73	58	0	0	41	0.98
1331328--1331353	10	2.6	10	100	0	52	73	0	0	26	0.84
1333324--1333382	19	3.0	20	82	9	59	5	20	1	72	1.12
1338815--1338845	2	15.5	2	100	0	62	51	0	0	48	1.00
1338769--1338931	86	1.9	86	87	6	240	42	11	13	33	1.79
1343985--1344108	31	3.9	32	69	17	96	36	22	20	20	1.95
1346056--1346112	14	4.0	14	74	2	60	22	19	33	24	1.97
1347968--1348056	29	3.1	29	79	9	110	17	40	26	14	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1347965--1348082	58	2.0	59	85	9	161	19	40	25	14	1.89
1348063--1348175	20	5.7	20	76	14	99	23	47	17	10	1.79
1348087--1348176	30	3.0	30	88	0	144	23	46	20	10	1.80
1348032--1348141	50	2.2	51	86	4	152	23	45	18	12	1.83
1348836--1348887	28	1.9	27	88	7	79	26	0	13	59	1.34
1351923--1352339	59	7.1	59	88	7	615	41	0	14	44	1.48
1352031--1352057	10	2.7	10	100	0	54	40	0	18	40	1.51
1351923--1352339	119	3.6	117	93	5	693	41	0	14	44	1.48
1352161--1352385	46	4.4	48	74	21	197	40	0	13	45	1.47
1352207--1352291	11	7.6	11	74	16	59	40	0	16	43	1.48
1352358--1352404	14	3.6	14	75	21	57	36	0	17	46	1.48
1354768--1354858	42	2.2	43	78	9	98	43	14	2	39	1.57
1355007--1355072	31	2.2	29	82	15	82	46	10	0	42	1.38
1355459--1355494	11	3.2	11	84	7	54	36	19	22	22	1.95
1355685--1355750	33	2.0	33	93	0	114	15	19	37	27	1.92
1355739--1355764	10	2.6	10	100	0	52	11	19	50	19	1.77
1359937--1360074	69	2.0	69	90	2	215	36	21	14	27	1.93
1361003--1361117	32	3.6	31	76	11	106	32	13	20	34	1.90
1361700--1361963	106	2.6	97	85	7	327	34	24	19	21	1.96
1361763--1362010	106	2.3	107	86	0	336	31	23	20	23	1.98
1362292--1362368	37	2.1	37	82	2	93	25	16	15	41	1.88
1362524--1362640	36	3.2	36	85	7	164	25	19	14	40	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1362626--1362715	39	2.4	37	82	10	112	41	22	7	28	1.81
1362723--1362879	84	1.9	85	87	1	235	29	24	21	25	1.99
1371581--1371663	21	4.0	20	73	11	58	26	30	22	20	1.98
1378213--1378583	126	2.9	126	91	1	582	42	16	9	31	1.79
1386387--1386477	30	2.9	31	80	4	112	32	12	16	38	1.86
1394385--1394509	66	1.9	66	88	0	187	9	28	26	36	1.88
1396437--1396466	15	2.0	15	93	0	51	20	50	16	13	1.78
1401310--1401398	38	2.3	38	87	9	128	29	23	11	35	1.90
1401648--1401682	18	1.9	18	88	0	52	60	20	2	17	1.49
1414896--1414935	20	2.0	20	95	0	71	45	12	5	37	1.64
1414949--1414988	20	2.0	21	85	14	57	47	12	5	35	1.63
1415002--1415040	20	2.0	20	94	0	69	41	17	5	35	1.72
1414889--1415041	52	2.9	52	93	2	263	49	13	5	31	1.66
1418861--1418898	20	1.9	20	94	0	67	44	13	5	36	1.66
1418913--1418952	20	2.0	21	90	5	64	45	15	5	35	1.68
1418964--1419004	20	2.0	21	85	4	57	43	12	4	39	1.63
1418859--1419005	52	2.8	52	94	4	262	48	12	5	34	1.64
1420166--1420505	169	2.0	170	99	0	673	38	21	14	25	1.92
1425103--1425153	21	2.5	20	87	12	77	45	0	11	43	1.40
1426064--1426117	20	2.5	22	94	5	94	14	22	44	18	1.86
1427210--1427289	29	2.8	30	77	7	76	51	6	10	32	1.60
1427667--1427737	31	2.3	31	95	0	124	38	14	11	36	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1427667--1427745	31	2.5	31	91	0	122	36	16	11	35	1.85
1429747--1429790	23	1.9	23	85	0	61	31	9	29	29	1.88
1436831--1436893	26	2.5	26	87	5	85	39	26	11	22	1.87
1444849--1445236	185	2.1	183	88	4	577	45	8	3	43	1.49
1446800--1446827	2	14.0	2	100	0	56	0	50	0	50	1.00
1448060--1448318	134	1.9	133	96	0	473	18	13	25	41	1.88
1448918--1448985	31	2.2	31	94	0	127	26	16	14	42	1.86
1452482--1452559	37	2.1	37	95	0	138	44	6	5	43	1.51
1454482--1454538	30	1.9	30	92	0	96	33	8	17	40	1.81
1455674--1455712	20	2.0	20	90	10	62	43	2	0	53	1.14

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