genome.fa.s9617.2.7.7.80.10.50.1000.7.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: VEPZ01009617.1 Hibiscus syriacus cultivar Beakdansim tig00117005_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3386631

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

This is table  7  of  16  ( 1887 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)
1242027--1242084	26	2.0	27	84	15	73	44	0	5	50	1.24
1242495--1242546	24	2.2	24	82	0	59	11	15	25	48	1.78
1242516--1242546	14	2.2	14	94	0	53	6	12	25	54	1.62
1242505--1242566	24	2.6	24	86	0	88	14	11	19	54	1.69
1243649--1243723	10	7.7	10	68	21	52	10	10	21	57	1.62
1243655--1243716	16	3.9	16	95	0	115	8	11	22	58	1.59
1243720--1243780	31	2.0	31	90	3	97	50	9	8	31	1.65
1244012--1244104	30	3.1	29	78	7	107	38	3	2	55	1.28
1244005--1244109	28	3.6	29	75	12	99	38	3	1	56	1.29
1244158--1244212	24	2.3	24	84	6	67	38	3	0	58	1.16
1244158--1244224	24	2.8	24	81	6	64	37	4	0	58	1.19
1254198--1254239	17	2.5	17	84	3	50	83	14	0	2	0.75
1261086--1261753	114	5.9	114	76	10	559	41	12	8	37	1.74
1261112--1261739	228	2.8	223	80	8	700	41	12	8	37	1.74
1264104--1264148	23	2.0	23	87	8	67	26	11	6	55	1.59
1264136--1264178	22	2.0	21	86	4	59	23	2	2	72	1.08
1265032--1265066	18	1.9	18	100	0	70	42	0	11	45	1.40
1269117--1269204	31	2.9	31	84	1	97	26	19	19	35	1.95
1269715--1269748	17	2.0	17	88	0	50	41	0	11	47	1.40
1270751--1270782	2	16.0	2	93	0	55	46	0	0	53	1.00
1270782--1270840	2	30.0	2	96	3	111	0	0	50	49	1.00
1271336--1271372	18	2.1	18	100	0	74	21	21	35	21	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1271228--1271538	159	2.0	156	95	4	567	34	11	26	27	1.91
1271498--1271636	21	7.0	21	84	8	161	25	23	28	23	1.99
1271498--1271636	39	3.5	42	81	10	161	25	23	28	23	1.99
1271516--1271636	60	2.0	59	84	9	156	25	23	28	23	2.00
1272295--1272345	21	2.5	20	84	9	68	23	17	11	47	1.81
1274238--1274315	23	3.3	23	74	1	75	33	21	19	25	1.97
1275305--1275461	64	2.5	63	75	13	151	25	19	21	34	1.96
1280583--1280614	2	16.0	2	100	0	64	50	0	0	50	1.00
1282273--1282396	62	2.0	62	100	0	248	41	16	6	35	1.74
1283655--1283689	17	2.0	17	88	5	52	42	2	0	54	1.15
1284609--1284690	29	2.9	28	94	3	137	10	39	28	21	1.87
1284694--1284787	33	2.8	33	88	3	127	8	38	26	26	1.85
1284706--1284798	10	8.7	10	70	13	60	9	36	29	24	1.87
1284786--1284826	14	2.9	14	100	0	82	7	34	43	14	1.73
1284707--1284812	33	3.2	33	82	4	115	9	35	31	23	1.87
1284869--1284926	29	2.0	29	89	0	89	22	27	36	13	1.92
1286290--1286338	24	2.1	23	84	3	62	53	2	4	40	1.32
1287737--1287792	28	2.0	28	96	0	103	8	14	23	53	1.68
1287737--1287792	14	4.0	14	90	0	85	8	14	23	53	1.68
1288791--1288833	16	2.7	16	92	0	68	11	11	18	58	1.63
1292402--1292436	15	2.4	15	95	4	63	68	0	0	31	0.90
1294739--1294797	29	2.0	29	80	6	66	38	5	5	50	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1298154--1298220	35	1.9	35	87	0	98	41	25	11	20	1.87
1302984--1303025	22	1.9	22	85	9	59	23	2	4	69	1.20
1313014--1313041	14	2.0	14	100	0	56	28	0	7	64	1.20
1319230--1319254	6	4.2	6	100	0	50	20	48	0	32	1.50
1319817--1319885	27	2.6	27	92	0	111	40	14	5	39	1.70
1321561--1321613	3	17.7	3	77	14	56	28	3	0	67	1.07
1321555--1321612	22	2.5	23	81	13	66	27	5	0	67	1.12
1321576--1321614	7	5.3	7	93	6	60	25	0	0	74	0.82
1321576--1321630	8	7.2	8	87	4	71	21	1	0	76	0.88
1321576--1321642	15	4.5	15	83	12	66	19	2	0	77	0.89
1321604--1321647	17	2.7	16	89	10	63	13	4	0	81	0.83
1321589--1321638	16	3.2	15	91	2	64	16	4	0	80	0.87
1322282--1322334	27	2.0	25	89	7	79	41	3	0	54	1.18
1322317--1322365	21	2.3	20	80	16	55	42	2	2	53	1.24
1322656--1322681	13	2.0	13	100	0	52	15	7	15	61	1.55
1324209--1324266	19	2.9	20	82	10	66	56	0	3	39	1.16
1324938--1325247	20	15.2	20	77	12	269	38	25	20	15	1.92
1324995--1325247	40	6.2	40	87	9	359	37	26	19	16	1.93
1324938--1325247	62	5.1	60	82	10	321	38	25	20	15	1.92
1325343--1325427	6	14.5	6	98	1	156	31	51	16	0	1.45
1325925--1326050	6	21.5	6	99	0	231	0	16	51	31	1.45
1326159--1326399	20	11.8	20	82	12	244	17	19	27	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1326152--1326404	40	6.2	42	90	4	385	16	19	26	37	1.92
1326152--1326404	82	3.1	82	89	4	395	16	19	26	37	1.92
1326152--1326459	82	3.8	81	84	8	369	16	19	25	38	1.92
1326411--1326461	19	2.6	20	78	12	52	11	19	25	43	1.85
1330209--1332361	94	23.0	94	97	1	4103	36	21	16	24	1.94
1333357--1333403	22	2.1	23	84	4	60	46	2	0	51	1.13
1333395--1333429	18	1.9	18	94	0	61	62	0	0	37	0.95
1333393--1333444	23	2.3	23	86	0	68	57	0	1	40	1.10
1333402--1333439	18	2.1	18	85	9	51	60	0	2	36	1.11
1333413--1333471	31	1.9	31	82	6	75	50	0	1	47	1.11
1333483--1333574	27	3.3	27	72	17	73	46	1	2	50	1.20
1333716--1333774	22	2.9	20	78	12	59	55	1	0	42	1.09
1333925--1333992	17	3.9	17	77	9	75	52	2	0	44	1.16
1346446--1346494	20	2.5	20	90	6	73	42	22	0	34	1.54
1350898--1350943	24	1.9	25	86	8	69	47	0	0	52	1.00
1353013--1353421	198	2.0	201	97	2	781	41	14	19	24	1.89
1358496--1358531	18	1.9	19	94	5	65	47	0	5	47	1.25
1363924--1364027	29	3.6	29	94	1	183	17	20	17	45	1.86
1364398--1364554	64	2.5	63	78	10	167	27	18	18	35	1.94
1370362--1370395	15	2.3	15	94	0	59	32	32	20	14	1.93
1370897--1371053	64	2.5	64	75	12	162	26	17	18	37	1.93
1372482--1372524	19	2.3	19	95	0	77	25	18	20	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1374534--1374602	21	3.3	21	100	0	138	39	10	27	23	1.87
1374608--1374723	60	1.9	60	80	0	133	39	9	13	37	1.78
1377036--1377287	124	2.0	125	99	0	497	33	13	11	41	1.81
1377655--1377703	22	2.1	24	81	7	57	32	6	2	59	1.34
1392672--1392741	33	2.2	31	82	10	79	31	12	2	52	1.54
1414483--1414800	151	2.1	153	96	2	588	40	3	18	37	1.69
1415278--1415349	31	2.4	31	83	4	94	26	18	18	37	1.93
1415667--1421317	4	1431.5	4	96	3	10455	25	0	25	49	1.51
1424858--1424890	16	2.1	17	88	11	52	30	6	21	42	1.77
1425039--1425138	31	3.2	31	83	8	132	29	19	18	34	1.95
1425023--1425141	62	1.9	62	89	3	186	26	19	20	34	1.96
1425348--1425406	25	2.4	25	100	0	118	32	6	16	44	1.74
1425417--1425449	18	1.9	17	88	11	50	51	6	18	24	1.68
1425500--1425541	4	10.5	4	100	0	84	26	0	23	50	1.50
1425989--1426206	54	4.1	54	87	4	298	33	21	19	25	1.96
1425988--1426191	106	1.9	106	89	2	320	35	21	18	25	1.95
1426357--1426544	46	4.1	46	90	0	277	44	10	19	26	1.82
1429354--1429397	22	2.0	23	90	4	72	52	2	0	45	1.13
1431711--1431743	12	2.8	12	90	0	57	57	6	0	36	1.23
1432978--1433024	23	2.0	23	88	8	69	23	21	23	31	1.98
1433468--1433521	25	2.2	24	77	9	56	64	1	7	25	1.30
1434217--1434247	2	15.5	2	100	0	62	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1438317--1438367	19	2.7	19	96	0	93	25	25	23	25	2.00
1440154--1443753	4	905.8	4	98	1	7005	49	25	0	24	1.50
1445114--1445146	2	16.5	2	100	0	66	48	0	0	51	1.00
1452532--1453018	229	2.1	228	94	0	857	44	8	7	40	1.62
1453144--1453481	161	2.1	162	89	0	516	41	14	16	27	1.87
1453467--1453509	20	2.3	19	88	11	63	51	11	16	20	1.75
1455742--1455806	21	3.1	21	79	0	76	38	12	30	18	1.88
1455840--1455905	33	2.0	33	90	0	105	28	0	48	22	1.51
1457697--1457745	19	2.6	19	93	0	80	30	2	10	57	1.43
1459480--1459583	6	17.3	6	79	0	73	36	7	34	21	1.82

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