genome.fa.s8397.2.7.7.80.10.50.1000.7.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: VEPZ01008397.1 Hibiscus syriacus cultivar Beakdansim tig00111166_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2560905

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

This is table  7  of  13  ( 1496 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)
1207877--1207917	20	2.1	20	90	4	66	29	4	2	63	1.28
1208998--1209109	31	3.5	31	75	10	109	26	25	27	20	1.99
1211839--1211882	23	1.9	23	81	9	54	50	4	2	43	1.35
1214137--1214178	18	2.2	19	79	12	50	35	9	19	35	1.84
1217880--1218618	39	19.2	39	90	1	955	27	17	14	39	1.89
1218462--1218519	21	3.0	21	67	27	65	31	20	12	36	1.89
1218528--1218591	21	3.3	20	69	24	57	28	20	12	39	1.89
1218695--1218900	73	2.8	73	89	1	288	28	20	12	38	1.89
1219220--1219674	131	3.5	131	85	7	591	33	18	21	26	1.96
1219467--1220032	241	2.3	240	89	2	832	36	16	21	25	1.94
1219964--1220028	20	3.3	20	67	18	55	46	12	20	21	1.83
1219951--1220119	91	1.9	90	95	3	304	41	14	19	24	1.89
1220245--1220298	3	18.0	3	92	0	90	37	0	0	62	0.95
1221807--1221850	23	1.9	23	81	9	54	50	4	2	43	1.35
1222841--1222912	36	2.0	36	97	0	135	25	20	30	23	1.99
1224219--1224254	18	2.0	18	100	0	72	38	16	5	38	1.72
1233769--1233964	55	3.6	55	89	1	286	34	18	20	25	1.96
1235902--1235938	18	2.1	18	85	14	51	43	10	13	32	1.79
1237572--1237613	12	3.5	13	78	15	54	14	9	16	59	1.60
1237769--1237809	2	20.5	2	100	0	82	48	0	0	51	1.00
1239799--1239854	30	1.9	29	82	13	71	19	3	23	53	1.60
1239625--1239933	156	2.0	157	98	0	593	25	7	23	43	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1239653--1239933	81	3.5	81	73	9	317	27	5	22	44	1.75
1240744--1240780	18	2.1	18	85	14	51	43	10	13	32	1.79
1242391--1242455	12	5.4	12	73	14	62	13	9	18	58	1.61
1242387--1242459	24	3.0	24	79	0	92	17	8	17	56	1.65
1255631--1255667	3	12.3	3	88	11	58	29	0	0	70	0.88
1255632--1255675	12	3.6	13	88	8	58	29	0	2	68	1.02
1255638--1255679	19	2.2	19	87	8	59	33	0	2	64	1.07
1259634--1259697	32	2.0	32	96	3	121	15	14	9	60	1.57
1262121--1262197	26	3.2	25	67	22	74	24	23	10	41	1.85
1262790--1262836	18	2.6	17	75	21	51	68	14	12	4	1.36
1262820--1262857	11	3.4	11	89	7	58	71	10	13	5	1.30
1264034--1264067	4	9.0	4	87	12	54	50	26	0	23	1.50
1264030--1264075	22	2.1	21	92	4	74	50	23	2	23	1.61
1265051--1265122	29	2.5	29	90	0	117	29	11	15	44	1.80
1265080--1265162	26	3.1	25	80	11	76	28	9	14	46	1.76
1265158--1265261	52	2.0	53	92	3	174	32	13	18	35	1.90
1265231--1265289	28	2.2	28	81	6	68	35	6	16	40	1.76
1265245--1265382	28	4.6	29	75	16	129	31	10	13	45	1.76
1265293--1265414	37	3.5	36	72	19	123	31	13	10	45	1.77
1265260--1265474	67	3.3	66	86	5	276	29	12	11	46	1.77
1265664--1265784	64	1.9	63	87	1	179	27	14	12	45	1.81
1265769--1265848	40	2.0	40	87	4	117	31	20	11	37	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1266274--1266303	1	30.0	1	100	0	60	100	0	0	0	0.00
1266505--1266558	28	1.9	28	85	7	74	22	16	16	44	1.86
1266570--1267041	40	10.9	43	72	11	279	26	30	19	23	1.98
1266570--1267041	129	3.7	129	96	1	874	26	30	19	23	1.98
1267243--1267279	3	12.3	3	88	11	58	29	0	0	70	0.88
1267244--1267287	12	3.6	13	88	8	58	29	0	2	68	1.02
1267250--1267291	19	2.2	19	87	8	59	33	0	2	64	1.07
1275592--1275625	16	2.1	16	100	0	68	50	0	17	32	1.47
1275690--1275786	46	2.1	46	86	0	131	20	23	18	37	1.94
1275707--1275799	23	4.1	22	71	15	73	20	22	21	35	1.96
1275918--1275954	6	6.2	6	87	0	56	45	0	21	32	1.52
1275952--1275986	2	17.5	2	93	0	61	48	0	2	48	1.16
1277652--1277730	21	3.8	21	91	0	131	20	17	39	22	1.92
1277952--1277991	21	1.9	21	89	0	62	50	10	10	30	1.69
1279093--1279140	20	2.4	21	86	10	66	29	16	4	50	1.64
1280454--1280592	21	6.8	20	82	10	147	22	20	35	20	1.96
1280945--1280983	19	2.0	20	90	5	62	15	17	0	66	1.25
1281475--1281513	20	2.0	20	89	0	60	33	10	23	33	1.88
1294751--1294828	3	26.7	3	74	14	65	32	2	1	64	1.15
1294740--1294779	18	2.1	20	86	9	57	22	5	5	67	1.30
1295499--1295533	18	2.1	18	89	10	56	54	0	40	5	1.24
1297356--1297399	16	2.6	17	78	3	54	22	2	6	68	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1297553--1297590	8	4.9	8	81	18	53	60	0	0	39	0.97
1297852--1298149	122	2.4	123	79	5	325	42	14	17	24	1.87
1299592--1299616	4	6.2	4	100	0	50	24	0	0	76	0.80
1299645--1299683	8	4.9	8	81	12	53	58	0	0	41	0.98
1299943--1300247	122	2.5	123	82	2	364	42	14	18	24	1.88
1302043--1302347	122	2.5	123	84	2	391	42	14	18	25	1.87
1303976--1304078	31	3.4	31	80	9	79	32	24	18	25	1.97
1304006--1304132	31	4.0	32	79	7	118	33	19	18	28	1.95
1304826--1304883	20	2.7	20	84	10	62	24	20	24	31	1.98
1305072--1305114	20	2.2	20	82	0	50	32	27	0	39	1.57
1307694--1307787	31	3.0	31	85	0	125	32	21	17	28	1.95
1309902--1309945	16	2.6	17	78	3	54	22	2	6	68	1.25
1311854--1311928	35	2.1	35	92	0	123	42	21	0	36	1.53
1312521--1312600	40	2.0	40	100	0	160	35	15	25	25	1.94
1319247--1319298	23	2.3	23	100	0	104	36	25	23	15	1.93
1322303--1322358	24	2.3	24	96	0	103	37	14	17	30	1.90
1328105--1328153	26	2.0	26	88	8	75	53	0	2	44	1.12
1328551--1328594	19	2.3	19	84	7	63	43	0	0	56	0.99
1328559--1328592	13	2.6	13	80	0	50	44	0	0	55	0.99
1329388--1329439	2	26.0	2	100	0	104	50	0	0	50	1.00
1330901--1330948	23	2.1	23	88	0	69	35	12	18	33	1.89
1331673--1331709	18	2.1	18	89	0	56	51	10	5	32	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1331912--1331975	22	2.8	23	80	4	76	40	17	7	34	1.78
1332340--1332401	22	2.7	23	87	5	90	40	17	4	37	1.71
1332330--1332401	23	3.2	23	84	4	92	41	19	4	34	1.71
1332769--1332824	23	2.4	23	87	0	76	39	17	7	35	1.78
1333133--1333169	19	1.9	19	88	0	56	45	10	16	27	1.80
1333173--1333224	23	2.3	22	90	6	77	44	19	1	34	1.62
1333183--1333245	23	2.7	23	90	0	90	38	19	6	36	1.77
1333591--1333662	23	3.1	23	87	2	90	40	20	5	33	1.76
1331914--1334174	421	5.4	427	95	4	4001	38	13	8	39	1.74
1334004--1334071	20	3.2	20	84	10	82	41	20	5	32	1.76
1335145--1335211	33	2.0	33	100	0	134	46	17	0	35	1.49
1336575--1336640	33	2.0	33	87	0	96	24	45	1	28	1.62
1338042--1338503	232	2.0	230	96	3	849	30	24	11	33	1.90
1338782--1338834	24	2.2	24	83	6	63	26	7	13	52	1.66
1338987--1339031	19	2.3	19	85	11	56	22	15	6	55	1.63
1339140--1339185	19	2.3	20	82	17	60	19	17	8	54	1.68
1347930--1347963	16	2.1	16	94	0	59	32	26	8	32	1.87
1351301--1351341	17	2.4	17	100	0	82	31	31	31	4	1.79
1352322--1352379	28	2.1	28	93	0	98	55	10	15	18	1.68
1354054--1354114	27	2.3	27	97	0	113	36	11	26	26	1.90
1366781--1366821	21	2.0	21	86	13	59	51	2	7	39	1.43
1370602--1370683	20	3.9	21	76	13	71	24	35	25	14	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1378745--1378771	2	13.5	2	100	0	54	48	0	0	51	1.00
1386437--1386486	20	2.5	20	93	0	91	48	22	10	20	1.79
1387031--1387095	19	3.4	19	89	4	96	13	18	20	47	1.82
1388492--1388536	21	2.1	21	87	0	63	31	28	24	15	1.96
1390190--1390230	13	3.5	13	75	25	54	21	26	26	24	2.00
1390178--1390243	22	3.0	22	97	0	123	21	27	27	24	1.99
1392309--1392370	21	3.0	21	76	6	63	20	30	17	30	1.96
1392315--1392385	21	3.4	21	80	0	61	19	32	21	26	1.97
1393906--1393948	21	2.0	21	81	0	50	30	30	25	13	1.94
1393977--1394021	22	2.0	22	86	4	63	31	33	26	8	1.87

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