genome.fa.s8150.2.7.7.80.10.50.1000.6.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: VEPZ01008150.1 Hibiscus syriacus cultivar Beakdansim tig00110716_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3012591

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

This is table  6  of  14  ( 1639 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)
1271186--1271224	20	2.0	20	94	0	69	33	12	20	33	1.91
1271262--1271310	20	2.5	20	86	0	71	28	14	24	32	1.94
1271206--1271450	134	1.8	134	90	1	393	28	15	20	35	1.93
1271282--1271424	57	2.5	57	93	0	241	27	16	22	33	1.96
1271394--1271445	21	2.5	21	90	3	79	28	15	25	30	1.96
1271440--1271485	20	2.3	20	88	0	65	19	19	19	41	1.91
1271226--1271548	134	2.4	131	83	6	339	26	14	21	36	1.93
1272212--1272258	20	2.3	20	88	0	67	31	17	23	27	1.96
1272101--1272552	77	5.8	77	80	9	522	28	15	20	35	1.93
1272287--1272359	21	3.5	21	94	1	121	31	16	24	27	1.96
1272355--1272399	20	2.2	20	88	0	63	20	20	20	40	1.92
1272469--1272612	57	2.5	57	89	0	225	29	14	18	36	1.91
1272606--1272654	20	2.5	20	86	0	71	16	18	18	46	1.84
1276925--1276986	9	6.7	9	72	20	56	3	12	0	83	0.75
1276919--1276962	23	1.9	23	85	0	61	0	13	4	81	0.83
1276932--1276984	21	2.8	21	78	21	64	3	13	0	83	0.79
1276925--1276986	23	2.7	23	80	7	63	3	12	0	83	0.75
1276932--1276986	13	4.6	12	78	19	53	3	12	0	83	0.77
1291806--1291850	18	2.5	18	88	0	72	22	20	22	35	1.96
1292919--1292993	28	2.7	27	75	4	78	68	4	12	16	1.35
1292888--1292994	27	3.9	27	74	4	99	63	2	14	19	1.42
1295651--1295829	51	3.5	52	82	1	200	27	22	16	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1295824--1296493	54	12.4	54	94	0	1137	18	25	19	35	1.95
1301084--1301233	72	2.1	72	93	0	255	25	24	11	38	1.89
1303941--1304033	21	4.5	21	75	4	91	39	17	24	18	1.91
1304022--1304114	20	4.7	20	76	5	80	34	23	18	23	1.96
1303941--1304033	41	2.3	41	96	0	177	39	17	24	18	1.91
1304019--1304095	41	1.9	40	83	2	100	40	20	16	22	1.91
1304064--1304110	19	2.4	20	85	7	69	27	27	19	25	1.99
1304687--1304871	19	10.1	19	75	14	165	12	22	21	43	1.86
1304687--1304871	33	5.1	38	78	12	165	12	22	21	43	1.86
1304825--1304871	20	2.3	20	79	13	60	12	25	14	46	1.80
1306866--1306988	42	2.9	42	80	2	122	22	36	17	22	1.95
1306922--1306988	21	3.2	21	66	6	55	23	35	20	19	1.95
1308329--1308364	14	2.6	14	95	0	63	30	0	25	44	1.54
1308542--1308706	19	9.5	19	72	18	153	15	22	18	44	1.86
1308546--1308706	33	4.7	33	83	8	207	15	22	18	44	1.87
1308546--1308711	66	2.4	67	88	6	235	16	21	18	43	1.88
1311000--1311024	12	2.1	12	100	0	50	0	28	0	72	0.86
1311211--1311257	24	2.0	24	86	0	67	36	14	19	29	1.92
1312299--1312372	39	1.9	38	88	2	112	36	24	22	16	1.94
1312299--1312372	19	3.8	19	91	3	112	36	24	22	16	1.94
1312393--1312460	19	3.8	19	85	12	92	13	20	17	48	1.80
1314472--1314537	19	3.4	19	83	4	87	37	24	22	15	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1314511--1314588	32	2.4	32	87	4	113	47	21	19	11	1.81
1314527--1314583	14	3.9	14	72	18	53	49	24	17	8	1.75
1314595--1314662	19	3.6	19	92	4	120	14	22	19	44	1.86
1314595--1314690	19	5.1	19	87	3	113	15	22	19	41	1.89
1314610--1314701	19	4.8	19	85	5	78	15	22	21	40	1.91
1315124--1315168	18	2.5	18	88	0	72	13	15	44	26	1.83
1316483--1316520	20	1.9	20	88	0	58	50	21	15	13	1.78
1316781--1316824	22	2.0	22	90	0	70	18	15	43	22	1.88
1317012--1317105	20	4.7	20	80	2	89	23	18	24	34	1.96
1317032--1317109	41	1.9	41	86	0	111	21	16	21	39	1.92
1316992--1317106	20	5.7	20	78	5	88	23	17	23	35	1.95
1317095--1317187	41	2.3	41	98	0	141	17	23	18	40	1.90
1317095--1317170	21	3.7	21	76	3	91	15	23	18	42	1.89
1317121--1317187	20	3.3	20	79	4	89	17	22	17	41	1.90
1325540--1325577	18	2.2	18	85	4	51	28	10	21	39	1.86
1326956--1326994	17	2.6	14	78	21	51	33	7	0	58	1.26
1326963--1326994	17	1.9	17	93	6	57	34	9	0	56	1.32
1335248--1335330	21	3.9	21	77	10	80	22	36	25	15	1.94
1337666--1337691	12	2.2	12	100	0	52	19	0	15	65	1.27
1340298--1340548	36	6.7	36	79	12	231	42	11	5	40	1.65
1340513--1340571	22	2.6	22	76	12	59	45	8	3	42	1.51
1340535--1340646	36	3.0	36	84	7	143	42	12	4	40	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1340457--1340653	97	2.1	93	81	8	218	42	11	3	43	1.57
1351769--1351800	12	2.7	12	90	0	55	75	3	0	21	0.95
1353796--1353937	38	3.7	37	73	15	128	40	10	6	42	1.65
1353801--1353875	40	1.9	38	86	5	105	38	13	6	41	1.70
1353912--1353961	22	2.2	23	89	3	75	44	10	2	44	1.49
1353864--1353998	63	2.2	60	81	11	157	40	11	5	42	1.65
1353934--1354033	36	2.8	36	90	1	155	44	13	4	39	1.62
1353978--1354094	60	2.0	60	88	3	175	42	10	4	42	1.58
1353928--1354033	37	2.9	37	88	1	160	41	13	3	41	1.62
1353999--1354056	22	2.5	23	80	5	73	44	8	3	43	1.51
1354020--1354130	36	3.0	36	81	10	125	42	12	4	40	1.63
1356755--1356781	14	1.9	14	100	0	54	22	22	22	33	1.97
1358118--1358154	18	2.1	18	94	0	65	21	18	32	27	1.97
1358923--1358949	2	13.5	2	100	0	54	48	0	0	51	1.00
1359057--1359081	7	3.6	7	100	0	50	16	0	60	24	1.36
1359079--1359112	12	2.8	13	86	13	54	17	0	52	29	1.45
1359065--1359108	18	2.4	18	76	3	52	13	0	54	31	1.39
1359463--1359506	19	2.3	18	84	7	52	54	0	0	45	0.99
1360210--1360234	2	12.5	2	100	0	50	52	0	0	48	1.00
1361889--1361919	2	15.5	2	100	0	62	48	0	0	51	1.00
1363172--1363248	25	3.0	26	62	7	68	24	18	11	45	1.82
1363173--1363272	50	2.0	50	96	0	182	24	16	12	48	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1375723--1375774	26	2.0	26	100	0	104	30	15	7	46	1.74
1389039--1389095	9	6.4	9	74	9	55	68	3	8	19	1.31
1389503--1389538	19	2.0	17	89	10	54	77	2	5	13	1.05
1389544--1389569	13	2.0	13	100	0	52	76	7	0	15	0.99
1391366--1392906	85	18.0	85	82	3	1678	25	18	21	34	1.96
1405914--1405957	22	2.0	21	91	4	70	27	29	29	13	1.94
1405914--1405957	21	2.0	22	86	4	63	27	29	29	13	1.94
1410477--1410504	13	2.2	13	100	0	56	78	0	21	0	0.75
1413258--1413317	18	3.3	18	81	9	68	70	1	8	20	1.22
1413259--1413315	9	6.4	9	74	9	55	70	1	8	19	1.23
1413326--1413390	21	3.1	21	76	14	55	78	4	9	7	1.08
1413402--1413443	22	2.0	21	85	4	57	85	4	7	2	0.80
1413642--1413723	23	3.4	23	74	11	67	75	4	4	14	1.14
1413659--1413694	19	2.0	17	89	10	54	77	2	5	13	1.05
1413685--1413725	18	2.3	19	79	12	50	75	2	4	17	1.08
1414086--1414135	21	2.5	20	90	6	82	26	48	22	4	1.68
1415129--1415153	13	1.9	13	100	0	50	48	12	0	40	1.40
1426598--1426765	46	3.7	46	83	4	207	22	21	11	45	1.83
1427166--1427219	22	2.5	22	88	5	76	31	25	14	27	1.95
1427261--1427310	20	2.5	21	83	9	68	20	28	14	38	1.91
1431436--1431598	46	3.6	46	82	2	204	21	23	10	44	1.83
1431955--1432594	54	11.9	54	85	0	818	34	18	17	29	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1433013--1433076	20	3.2	20	88	4	94	17	31	15	35	1.91
1438431--1438455	13	1.9	13	100	0	50	72	0	12	16	1.13
1439045--1439082	20	1.9	20	88	0	58	34	10	23	31	1.89
1452533--1452592	3	19.7	3	96	3	111	33	0	0	66	0.92
1455042--1455078	9	4.1	9	85	0	56	27	0	0	72	0.84
1459378--1459405	11	2.5	11	100	0	56	35	17	7	39	1.78
1460841--1460979	46	3.1	45	88	4	210	40	6	21	31	1.79
1473313--1473434	40	3.0	40	97	0	235	22	16	27	33	1.95
1473539--1473660	46	2.6	46	81	7	129	41	8	20	29	1.81
1473539--1473654	48	2.5	46	83	5	135	40	8	20	30	1.82

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