genome.fa.s8426.2.7.7.80.10.50.1000.7.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: VEPZ01008426.1 Hibiscus syriacus cultivar Beakdansim tig00111210_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4445546

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  ( 2101 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)
1170310--1170452	59	2.4	60	80	10	143	44	2	4	47	1.39
1170335--1170482	55	2.7	56	77	14	146	46	2	4	47	1.33
1170357--1170484	53	2.4	52	79	14	129	47	1	3	47	1.27
1176806--1176857	24	2.2	24	82	6	61	17	9	5	67	1.38
1183054--1183178	62	2.0	63	98	1	243	41	0	16	42	1.47
1183421--1183493	19	3.8	19	76	8	76	43	12	16	27	1.83
1185627--1185803	58	3.1	56	75	15	150	43	0	5	51	1.23
1185627--1185803	2	91.0	2	73	21	110	43	0	5	51	1.23
1194609--1194634	4	6.5	4	100	0	52	76	0	23	0	0.78
1195278--1195355	40	2.0	40	81	0	93	34	19	12	33	1.90
1214513--1214569	2	29.5	2	92	7	100	49	0	0	50	1.00
1214516--1214569	23	2.3	23	96	0	99	50	0	0	50	1.00
1214514--1214569	25	2.2	25	96	0	103	50	0	0	50	1.00
1214645--1214795	80	1.9	81	83	5	198	28	23	9	38	1.87
1214905--1215289	190	2.0	193	97	2	731	28	18	10	42	1.84
1215316--1216200	57	15.5	57	91	0	1331	32	18	11	37	1.87
1216167--1216229	32	2.0	32	96	0	117	33	15	6	44	1.72
1216115--1216289	89	2.0	90	91	1	289	32	18	10	38	1.85
1216199--1216517	57	5.6	57	91	0	467	32	17	11	37	1.86
1224361--1224400	17	2.4	17	83	8	55	55	5	30	10	1.54
1235913--1235947	12	3.0	12	95	4	63	25	0	0	74	0.82
1235916--1235970	18	2.9	18	79	17	58	25	3	0	70	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1244186--1244298	50	2.3	50	79	3	120	36	12	14	37	1.83
1246579--1246645	23	2.9	23	88	0	98	23	19	28	28	1.98
1251501--1251561	31	2.0	31	96	0	113	29	22	24	22	1.99
1260799--1260865	20	3.4	19	76	15	55	28	10	35	25	1.89
1261399--1261464	23	2.9	23	84	2	80	22	21	27	28	1.99
1262780--1262836	2	28.5	2	100	0	114	49	0	0	50	1.00
1262990--1263049	27	2.2	27	91	5	95	6	26	13	53	1.64
1264278--1264391	58	1.9	59	82	5	142	37	18	12	31	1.88
1283481--1283519	18	2.1	19	85	4	53	25	7	0	66	1.18
1290450--1290498	17	2.9	17	78	0	53	34	12	8	44	1.71
1294434--1294468	17	2.1	17	88	0	52	31	14	14	40	1.86
1294538--1294586	17	2.9	17	87	0	71	36	14	6	42	1.70
1298870--1299115	78	3.2	78	86	7	380	27	0	45	26	1.59
1301326--1301702	73	5.1	72	75	13	297	46	2	6	44	1.44
1301731--1301815	4	21.0	4	68	20	52	29	1	1	68	1.05
1301734--1301818	25	3.3	24	79	14	82	28	1	1	69	1.03
1301731--1301816	13	6.7	13	68	16	54	29	1	1	68	1.04
1302967--1303049	42	2.0	42	85	2	114	24	6	2	67	1.25
1303053--1303091	6	6.5	6	85	8	53	10	0	2	87	0.65
1303053--1303091	12	3.2	12	88	3	60	10	0	2	87	0.65
1305421--1305449	14	2.1	14	100	0	58	27	6	44	20	1.77
1305821--1306075	66	3.8	66	86	1	339	40	12	16	30	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1305903--1306008	30	3.3	30	66	29	83	41	15	15	28	1.87
1305821--1306075	133	1.9	133	91	1	413	40	12	16	30	1.86
1306034--1306114	30	2.7	29	84	3	99	43	13	12	30	1.81
1305968--1306151	96	1.9	96	81	4	219	42	11	14	31	1.81
1318461--1318516	28	2.0	28	100	0	112	25	21	7	46	1.76
1324206--1324237	6	5.2	6	92	7	55	15	0	0	84	0.63
1324206--1324237	13	2.5	13	95	5	57	15	0	0	84	0.63
1328918--1328952	15	2.3	16	85	14	56	51	5	2	40	1.40
1331965--1332069	37	2.8	37	81	7	115	30	13	15	40	1.85
1332612--1333242	105	6.0	105	89	2	896	22	17	26	33	1.96
1333442--1333517	36	2.1	36	90	0	116	43	15	18	22	1.88
1333417--1333735	105	3.1	105	90	2	486	37	12	19	30	1.89
1333638--1333712	39	1.9	39	86	5	107	38	13	21	26	1.90
1333866--1333980	36	3.2	36	72	4	108	44	10	17	27	1.81
1333819--1333980	72	2.2	75	84	8	208	40	12	19	27	1.87
1335109--1335645	183	2.9	183	93	0	905	30	21	20	27	1.98
1339818--1339916	8	12.5	8	72	18	50	61	1	3	34	1.18
1339891--1339931	17	2.2	17	87	12	55	65	2	4	26	1.25
1339819--1339936	62	1.9	62	84	8	150	62	0	3	33	1.17
1340291--1340391	37	2.7	37	87	0	130	30	14	11	42	1.82
1347430--1347850	39	10.8	39	91	1	632	27	19	18	35	1.95
1347430--1347850	116	3.6	116	92	0	664	27	19	18	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1347943--1348143	36	5.7	36	71	15	132	27	20	11	39	1.88
1347906--1348127	103	2.1	104	85	7	301	28	21	11	38	1.89
1348340--1348508	92	1.8	92	92	2	286	36	11	24	26	1.90
1348555--1348807	91	2.8	91	92	0	409	36	16	21	25	1.94
1348910--1349075	88	1.9	86	87	7	246	31	20	19	28	1.97
1350250--1350314	25	2.6	25	78	9	69	24	3	4	67	1.24
1352813--1354589	591	3.0	591	99	0	3511	20	12	25	41	1.87
1356718--1356814	36	2.7	36	82	4	108	42	23	1	32	1.61
1357326--1357588	140	1.9	140	91	0	436	46	11	6	35	1.66
1358966--1359024	25	2.4	24	77	5	64	44	0	18	37	1.50
1360522--1360594	37	1.9	38	86	2	103	35	13	16	34	1.88
1360838--1360874	12	3.0	12	92	4	56	18	54	16	10	1.71
1360875--1360971	32	3.0	32	82	10	110	52	0	0	47	1.00
1360971--1361023	11	4.6	12	83	9	74	30	47	11	11	1.74
1373223--1373251	13	2.1	14	93	6	51	0	10	6	82	0.83
1373416--1373459	21	2.1	21	100	0	88	11	27	13	47	1.77
1374236--1374294	31	1.9	31	86	10	86	44	5	0	50	1.24
1374236--1374308	31	2.4	30	82	13	78	43	6	0	49	1.29
1377358--1377393	18	2.0	18	88	0	54	58	0	19	22	1.40
1384222--1384257	18	1.9	19	88	5	56	36	5	8	50	1.56
1385428--1385581	39	4.1	38	79	8	147	32	15	9	42	1.80
1385487--1385581	37	2.6	37	79	3	102	35	14	7	42	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1385586--1385916	65	5.1	65	89	0	491	25	19	12	41	1.87
1385952--1386297	134	2.6	133	80	6	392	29	28	15	26	1.96
1386495--1386545	3	17.0	3	100	0	102	33	0	0	66	0.92
1390988--1391036	3	17.7	3	76	16	52	32	0	2	65	1.04
1390988--1391036	25	2.0	25	83	0	62	32	0	2	65	1.04
1390984--1391036	19	3.0	18	86	8	74	32	0	1	66	1.03
1399271--1399302	12	2.5	13	95	5	57	75	0	15	9	1.05
1399284--1399314	16	1.9	16	100	0	62	74	0	12	12	1.08
1406892--1406993	42	2.5	42	86	1	134	24	24	20	30	1.99
1407563--1407596	3	12.0	3	87	12	54	29	0	0	70	0.87
1407558--1407592	8	4.4	8	92	7	54	25	0	0	74	0.82
1407721--1407799	41	2.0	40	87	2	113	26	17	21	34	1.96
1407788--1408162	173	2.2	171	87	1	536	30	19	20	29	1.97
1408131--1408215	41	2.0	42	86	2	118	28	20	20	31	1.97
1409682--1411353	595	2.8	606	90	8	2495	37	9	7	45	1.65
1412751--1412810	23	2.5	23	82	15	61	10	1	8	80	0.99
1413907--1413949	22	2.0	22	95	0	77	9	18	6	65	1.44
1417236--1417293	13	4.2	13	80	20	73	31	1	8	58	1.38
1419723--1419764	20	2.0	21	90	4	68	35	11	9	42	1.74
1424371--1424412	21	2.0	20	86	4	57	38	11	9	40	1.75
1436858--1436898	20	2.0	21	85	4	57	41	0	7	51	1.30
1440751--1440849	42	2.4	42	83	5	121	32	23	21	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1440852--1441001	59	2.5	59	85	4	203	31	13	26	29	1.94
1441013--1441133	41	2.9	40	79	7	118	30	22	20	26	1.98
1441033--1441136	42	2.5	42	81	7	115	32	22	21	24	1.98
1440717--1441419	287	2.5	286	89	1	1059	31	16	24	28	1.97
1441135--1441292	59	2.7	59	86	1	226	30	11	27	30	1.91
1441313--1441426	42	2.7	41	73	9	106	30	17	21	29	1.96
1441421--1441564	57	2.5	58	75	9	143	40	19	9	31	1.83
1441421--1441746	110	2.9	109	84	5	377	39	19	10	30	1.84
1442646--1443515	435	2.0	435	99	0	1722	26	18	16	38	1.92
1451801--1451829	12	2.4	12	100	0	58	10	34	6	48	1.64

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