genome.fa.s8610.2.7.7.80.10.50.1000.7.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: VEPZ01008610.1 Hibiscus syriacus cultivar Beakdansim tig00111566_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2108335

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

This is table  7  of  11  ( 1240 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)
1254210--1254929	134	5.4	134	81	11	897	51	13	0	34	1.41
1254301--1254421	26	4.6	26	68	22	90	52	17	0	30	1.45
1254378--1254452	22	3.2	23	71	17	73	53	17	0	29	1.44
1254456--1254498	22	2.0	22	100	0	86	51	13	0	34	1.42
1254458--1254506	22	2.2	22	88	3	71	55	14	0	30	1.40
1254509--1254552	22	2.0	22	100	0	88	50	13	0	36	1.42
1254512--1254560	22	2.2	22	88	3	71	55	14	0	30	1.40
1254210--1255210	322	3.2	319	83	9	1205	51	12	0	35	1.41
1254564--1254606	22	2.0	22	100	0	86	51	9	0	39	1.34
1254537--1254615	22	4.4	18	68	23	58	53	11	0	35	1.37
1254566--1254614	22	2.2	22	88	3	71	55	10	0	34	1.34
1254743--1254850	32	3.7	32	69	23	101	52	10	0	37	1.35
1254780--1255085	80	3.8	80	98	0	585	52	13	0	33	1.43
1255042--1255120	22	4.4	18	66	23	58	53	11	0	35	1.37
1255037--1255254	32	7.4	32	71	24	167	50	8	0	40	1.33
1255069--1255111	22	2.0	22	95	0	77	51	11	0	37	1.39
1254649--1255210	54	10.5	54	71	18	383	52	12	0	34	1.42
1255071--1255119	22	2.2	22	85	3	62	55	12	0	32	1.37
1255125--1255173	22	2.2	22	85	3	62	53	14	0	32	1.41
1255196--1255269	15	5.0	15	91	3	123	50	1	0	48	1.09
1255196--1255269	29	2.5	30	91	2	123	50	1	0	48	1.09
1254649--1255292	108	6.0	107	69	17	315	51	11	0	36	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1258017--1258114	42	2.4	40	85	8	126	23	15	29	31	1.95
1258038--1258101	20	3.1	20	82	6	74	28	10	29	31	1.91
1261510--1261563	24	2.2	24	93	0	90	20	18	20	40	1.91
1263567--1263660	20	4.7	20	85	2	127	35	23	21	20	1.96
1263632--1263713	33	2.5	33	85	2	110	40	19	24	15	1.91
1263722--1263806	33	2.5	33	90	1	125	15	23	17	43	1.87
1263959--1264054	33	2.9	34	84	6	124	15	23	19	40	1.90
1263701--1264164	237	2.0	237	96	0	865	32	20	13	33	1.92
1264156--1264192	14	2.6	14	86	0	56	48	21	0	29	1.50
1265607--1265650	21	2.2	20	88	11	65	25	13	34	27	1.93
1266136--1266282	20	7.3	20	89	1	206	40	19	17	22	1.91
1266291--1266412	54	2.3	53	88	1	172	19	21	19	39	1.93
1266329--1266412	20	4.5	20	74	17	90	21	20	20	38	1.94
1268673--1268738	22	3.0	22	90	0	105	21	15	39	24	1.91
1268917--1268968	20	2.6	20	100	0	104	23	21	25	30	1.99
1268958--1269050	20	4.7	20	97	0	168	22	24	20	32	1.98
1269079--1269159	21	3.9	21	96	0	144	34	17	27	20	1.95
1271053--1271087	9	3.9	9	88	0	52	25	0	0	74	0.82
1271653--1271717	21	3.0	21	77	2	76	41	3	0	55	1.15
1271721--1271763	22	1.9	23	85	4	61	53	2	0	44	1.13
1272533--1272654	45	2.7	45	96	0	217	20	22	12	44	1.85
1272748--1272916	59	2.9	58	88	6	238	34	17	10	37	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1276247--1276283	2	18.5	2	100	0	74	48	0	0	51	1.00
1278012--1278268	45	5.7	45	91	0	397	22	21	12	43	1.85
1279566--1279609	11	4.0	11	93	0	79	52	27	2	18	1.57
1281840--1281900	20	2.9	21	80	7	61	14	22	36	26	1.93
1287670--1287711	22	1.9	22	95	0	75	11	23	40	23	1.88
1287963--1288072	56	1.9	57	90	1	177	36	17	10	35	1.85
1289953--1290039	31	2.8	32	77	5	79	35	19	5	39	1.76
1291594--1291633	19	2.2	18	90	4	62	35	0	2	62	1.09
1291639--1291937	38	7.9	35	75	15	185	42	4	6	47	1.48
1291639--1291937	37	7.9	35	74	14	188	42	4	6	47	1.48
1291639--1291925	76	3.8	74	83	8	294	41	4	6	47	1.50
1292002--1292046	3	14.7	3	82	13	56	31	0	2	66	1.04
1293263--1293301	13	3.2	13	78	14	55	23	2	0	74	0.94
1295505--1295566	29	2.1	31	85	11	85	72	0	12	14	1.12
1297048--1297291	35	6.8	35	72	16	142	41	10	4	44	1.57
1297043--1297299	34	7.2	35	74	13	177	41	10	3	44	1.56
1297030--1297303	73	3.8	70	78	12	245	41	9	3	44	1.55
1305985--1306124	66	2.1	66	94	0	244	19	24	17	39	1.92
1309176--1309232	29	1.9	30	82	3	71	49	7	10	33	1.64
1310106--1310287	92	2.0	92	94	0	319	15	25	23	36	1.94
1310360--1310391	16	2.0	16	100	0	64	43	18	18	18	1.88
1310549--1310609	13	4.8	12	75	16	61	39	8	6	45	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1310531--1310801	37	7.5	35	79	9	224	40	10	4	43	1.60
1310540--1310807	72	3.7	72	82	3	279	39	10	4	45	1.59
1319547--1319609	11	5.9	11	69	14	51	58	3	1	36	1.23
1319799--1319837	7	5.6	7	90	0	60	51	33	0	15	1.44
1319793--1319837	14	3.2	14	90	0	54	53	31	0	15	1.43
1321149--1321173	11	2.3	11	100	0	50	28	0	28	44	1.55
1323794--1323835	21	2.0	21	85	0	57	23	0	28	47	1.52
1323795--1323859	7	9.4	7	74	3	51	27	0	24	47	1.52
1324690--1324737	19	2.5	19	89	3	69	45	27	6	20	1.75
1339860--1339906	20	2.3	20	85	0	67	29	0	27	42	1.56
1346450--1346511	19	3.2	19	77	9	63	24	30	29	16	1.96
1350299--1350344	22	2.1	22	84	8	58	30	0	8	60	1.26
1356578--1356624	20	2.3	20	85	0	67	29	0	27	42	1.56
1358459--1358660	73	2.8	73	93	3	336	21	29	25	22	1.99
1364406--1364456	23	2.3	23	86	6	79	21	41	17	19	1.91
1382121--1382173	26	2.0	26	100	0	106	22	11	39	26	1.88
1383747--1383842	40	2.4	40	87	5	140	23	4	18	53	1.62
1389266--1389317	2	26.0	2	96	0	95	51	0	0	48	1.00
1390729--1390787	22	2.6	21	84	10	64	45	3	0	50	1.18
1390718--1390779	24	2.5	24	80	12	81	45	3	0	51	1.17
1390790--1390842	20	2.7	20	80	11	72	45	0	0	54	0.99
1390742--1390842	20	4.5	21	71	20	71	44	0	0	54	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1390912--1391015	31	3.3	32	78	5	113	58	2	3	34	1.31
1391036--1391094	25	2.3	26	80	8	68	54	1	3	40	1.27
1391081--1391120	2	20.0	2	100	0	80	50	0	0	50	1.00
1399699--1399749	23	2.3	22	93	3	84	17	43	21	17	1.88
1399705--1399739	18	1.9	18	88	0	52	17	45	22	14	1.84
1399771--1399938	29	5.9	28	87	6	223	33	7	21	38	1.81
1399763--1399946	58	3.2	57	87	6	266	33	6	20	39	1.79
1399763--1399965	85	2.4	85	82	6	250	33	5	19	40	1.76
1400704--1400779	24	3.2	24	75	0	89	23	19	18	38	1.93
1400688--1400779	48	1.9	48	90	0	148	23	18	16	41	1.90
1407072--1407274	59	3.5	58	85	6	259	32	6	23	37	1.80
1407074--1407274	29	6.9	30	85	6	254	32	6	22	37	1.80
1407972--1408088	24	4.9	24	76	0	99	26	16	15	41	1.87
1407968--1408088	48	2.5	48	86	0	161	25	16	15	42	1.88
1409858--1410063	51	4.1	51	86	3	256	27	10	11	50	1.71
1411838--1411959	39	2.9	42	87	9	139	44	22	1	31	1.63
1411863--1411959	39	2.5	39	96	0	176	45	20	2	31	1.63
1414172--1414222	2	25.5	2	100	0	102	50	0	0	49	1.00
1415055--1415206	73	2.1	73	96	0	277	29	26	19	24	1.98
1420938--1421058	20	5.8	20	79	8	107	23	28	15	33	1.95
1420937--1421014	41	1.9	41	86	5	113	23	28	14	34	1.93
1423048--1423087	20	2.0	21	90	9	66	22	0	20	57	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1423681--1423820	73	1.9	73	95	0	253	29	25	20	25	1.99
1446332--1446525	100	1.9	102	87	2	284	31	16	12	39	1.86
1446916--1447390	137	3.5	137	82	1	432	36	26	13	23	1.92
1447455--1447698	104	2.3	104	86	0	326	35	24	15	25	1.94
1447885--1447941	3	19.0	3	100	0	114	33	0	0	66	0.92
1458097--1458134	2	19.0	2	100	0	76	50	0	0	50	1.00
1464098--1464139	22	1.9	22	90	0	66	28	11	30	28	1.92
1464553--1464698	79	1.8	79	86	5	215	35	10	26	27	1.89
1464554--1464716	79	2.1	79	82	4	195	37	9	26	26	1.87
1464680--1464915	45	5.3	45	83	4	273	39	8	20	31	1.82

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