genome.fa.s7889.2.7.7.80.10.50.1000.8.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: VEPZ01007889.1 Hibiscus syriacus cultivar Beakdansim tig00110271_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1663484

Tables:   1   2   3   4   5   6   7   8   9   

This is table  8  of  9  ( 1005 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)
1379257--1379303	19	2.5	19	92	0	76	57	10	2	29	1.44
1381572--1381626	24	2.4	23	80	11	69	49	7	0	43	1.30
1383571--1384176	182	3.3	181	91	2	946	25	17	14	42	1.87
1384886--1384916	2	15.5	2	100	0	62	51	0	0	48	1.00
1385106--1385147	20	2.2	19	84	12	59	26	28	7	38	1.82
1385743--1385776	15	2.3	15	89	0	50	5	26	0	67	1.13
1387188--1387250	15	4.1	15	73	15	56	65	0	28	6	1.17
1387844--1387911	34	2.0	33	88	2	100	32	16	26	25	1.96
1388422--1388546	37	3.5	37	71	22	124	26	11	12	50	1.73
1388374--1388631	68	3.9	68	81	9	325	27	12	11	48	1.74
1396798--1396842	2	22.5	2	100	0	90	48	0	0	51	1.00
1397417--1397457	18	2.3	18	86	0	64	26	12	17	43	1.84
1397705--1397776	36	2.0	35	86	2	99	55	8	9	26	1.60
1397935--1397973	16	2.4	16	86	0	51	10	12	28	48	1.74
1400603--1400666	31	2.1	31	87	0	92	31	10	18	39	1.86
1401902--1401962	28	2.2	28	93	0	104	31	16	9	42	1.81
1404774--1404902	67	1.9	67	82	6	163	28	17	12	41	1.86
1405369--1405407	19	2.1	19	95	0	69	25	33	23	17	1.96
1405815--1405868	24	2.3	23	78	18	58	51	9	7	31	1.61
1406371--1406449	23	3.4	23	82	0	86	34	22	25	17	1.96
1406526--1406589	14	4.4	14	80	7	83	42	20	6	31	1.77
1410981--1411033	14	3.6	14	82	12	54	45	20	5	28	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1411770--1411847	23	3.5	23	71	15	74	33	24	16	25	1.96
1414041--1414109	35	2.0	35	100	0	138	27	31	14	26	1.95
1414830--1414904	38	2.0	38	94	2	134	28	17	10	44	1.82
1416266--1416293	3	9.3	3	100	0	56	35	32	0	32	1.58
1416694--1416718	11	2.3	11	100	0	50	36	0	8	56	1.29
1416894--1416970	21	3.7	21	89	0	109	16	23	18	41	1.90
1417457--1417547	20	4.6	20	86	6	116	51	18	17	12	1.75
1417565--1417627	20	3.2	20	86	8	92	12	22	17	47	1.81
1419263--1419730	94	5.1	94	91	1	725	21	12	19	47	1.81
1419874--1420005	33	3.8	33	81	11	165	9	21	21	46	1.80
1419874--1420029	19	8.6	19	70	16	116	10	21	20	47	1.80
1419899--1420012	39	3.1	38	82	9	148	10	21	20	48	1.79
1420483--1420549	21	3.2	21	66	6	55	23	35	20	19	1.95
1420456--1420549	42	2.2	42	81	7	102	22	35	21	21	1.96
1421898--1421934	14	2.6	14	91	0	65	32	0	21	45	1.52
1422041--1422091	14	3.1	17	72	21	54	45	17	23	13	1.84
1422041--1422134	33	2.8	33	91	3	145	45	22	20	11	1.83
1422041--1422139	19	5.7	18	72	24	72	46	22	20	11	1.81
1422073--1422149	19	4.3	19	79	18	85	45	24	16	12	1.83
1422149--1422272	33	3.8	33	92	0	203	12	24	16	45	1.83
1422248--1422341	20	4.7	20	70	13	59	22	20	22	35	1.96
1422533--1422563	12	2.6	12	94	0	53	16	6	25	51	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1424809--1424868	24	2.5	24	83	0	84	38	18	18	25	1.93
1425704--1425767	20	3.3	19	70	16	51	29	18	25	26	1.98
1433863--1433902	21	1.9	21	89	0	62	20	22	17	40	1.92
1435179--1435209	14	2.2	14	94	0	53	77	0	12	9	0.99
1437929--1438309	124	3.1	124	87	0	548	26	18	17	38	1.92
1441878--1441940	21	3.1	19	81	16	81	39	11	22	26	1.87
1447253--1447286	18	1.9	18	88	5	52	50	0	17	32	1.47
1451961--1452234	73	3.7	74	78	7	297	34	12	20	31	1.91
1451937--1452216	36	7.6	37	67	11	139	35	13	20	31	1.91
1453516--1453569	18	2.8	20	88	5	76	5	12	5	75	1.15
1453505--1453570	30	2.2	29	82	12	80	4	12	6	77	1.10
1453553--1453591	14	2.7	14	92	4	60	2	12	5	79	1.00
1454800--1454838	20	2.0	19	85	5	51	46	15	15	23	1.83
1466902--1466943	19	2.4	17	85	14	59	54	0	0	45	0.99
1467877--1467931	24	2.2	25	90	6	85	47	9	10	32	1.70
1468106--1468160	23	2.4	23	84	0	83	29	25	10	34	1.90
1477455--1477509	23	2.4	23	75	6	58	38	9	21	30	1.85
1479092--1479212	57	2.1	57	96	0	224	36	21	12	29	1.90
1483468--1483503	18	1.9	19	88	5	56	44	16	25	13	1.85
1491269--1491454	16	11.6	16	88	0	273	24	25	6	43	1.78
1491269--1491457	32	5.9	32	93	2	308	25	24	6	43	1.78
1491269--1491457	48	3.9	48	92	0	306	25	24	6	43	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1493045--1493153	24	4.6	24	65	21	59	55	15	0	29	1.41
1493034--1493221	76	2.6	73	82	8	222	56	13	0	29	1.41
1500392--1500430	18	2.2	18	90	0	60	71	0	7	20	1.10
1501022--1501210	76	2.6	74	87	6	253	55	13	0	30	1.43
1504645--1505067	175	2.4	173	81	7	460	40	8	11	39	1.71
1506318--1506379	32	1.9	32	100	0	124	43	12	16	27	1.84
1511735--1511801	34	1.9	34	82	14	84	20	11	19	47	1.81
1513965--1514031	34	1.9	34	82	14	84	20	8	19	50	1.74
1516376--1516481	42	2.6	41	80	1	122	31	21	20	26	1.98
1516639--1516740	42	2.5	41	78	9	109	31	21	22	24	1.98
1516176--1517642	258	5.7	257	89	3	2075	34	16	15	33	1.91
1516173--1517642	517	2.8	514	87	4	2064	34	16	15	33	1.91
1517414--1517515	41	2.5	42	73	15	104	34	22	19	23	1.97
1519321--1519347	2	13.5	2	100	0	54	0	0	48	51	1.00
1521854--1521896	6	7.0	6	89	5	68	51	16	13	18	1.77
1521857--1521897	13	3.2	13	93	3	66	56	14	12	17	1.68
1524808--1524859	23	2.3	23	89	0	77	34	34	0	30	1.58
1525631--1525694	3	20.0	3	81	9	56	62	0	1	35	1.05
1525632--1525693	22	2.9	21	86	11	81	62	0	1	35	1.05
1525631--1525702	19	3.9	19	77	10	69	61	0	1	37	1.05
1527563--1527606	12	3.7	12	90	0	61	47	27	13	11	1.77
1527513--1527581	31	2.2	31	78	0	75	43	18	14	23	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1528447--1528474	2	14.0	2	100	0	56	50	0	0	50	1.00
1529398--1529477	42	1.9	41	89	2	124	25	11	20	43	1.84
1531942--1531999	26	2.3	26	96	3	109	56	13	6	22	1.61
1532113--1532260	60	2.5	60	81	4	165	31	21	5	41	1.76
1532410--1532578	60	2.8	60	78	6	155	42	5	17	34	1.74
1535971--1536045	20	3.8	20	92	3	134	10	22	21	45	1.82
1535978--1536111	40	3.3	41	83	11	145	14	19	21	44	1.87
1536057--1536126	19	3.5	19	72	11	68	18	15	21	44	1.87
1536037--1536170	22	6.4	22	71	10	102	21	15	23	39	1.91
1536037--1536139	41	2.5	41	93	1	172	21	15	22	40	1.90
1536191--1536269	22	3.7	22	75	10	92	40	24	16	18	1.91
1536191--1536314	22	5.9	22	69	17	77	38	25	17	18	1.92
1536261--1536333	20	3.6	20	75	3	74	36	24	21	16	1.94
1536258--1536358	41	2.5	41	96	0	184	35	24	19	19	1.95
1536258--1536362	21	5.1	21	70	4	88	36	25	19	19	1.95
1537642--1537705	32	2.0	32	85	8	87	32	6	9	51	1.59
1538722--1538796	20	3.8	20	96	0	132	34	20	18	26	1.95
1539122--1539161	18	2.1	18	81	9	53	60	12	0	27	1.33
1542809--1542848	19	2.0	20	90	9	64	30	20	22	27	1.98
1542889--1542958	20	3.5	20	76	1	61	34	15	10	40	1.81
1549399--1549550	60	2.5	60	77	5	157	32	22	4	40	1.74
1560409--1560509	51	2.0	51	100	0	202	34	7	21	35	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1562549--1562603	23	2.4	23	84	6	67	21	10	1	65	1.33
1569200--1569336	59	2.3	59	82	2	186	29	17	23	29	1.97
1569437--1569563	47	2.8	45	87	7	175	37	7	22	32	1.81
1570568--1570648	30	2.8	28	83	7	99	49	17	9	23	1.76
1570568--1570651	28	2.9	29	83	5	107	50	16	9	23	1.75
1570709--1570776	32	2.2	32	83	2	84	52	10	5	30	1.59
1575508--1575542	17	2.0	18	88	5	54	25	2	0	71	1.00
1591795--1592168	54	6.9	53	87	3	496	32	18	17	31	1.94
1591796--1592168	108	3.5	108	89	0	557	32	19	16	31	1.94
1591796--1592162	162	2.3	162	92	1	603	32	18	16	32	1.94

Tables:   1   2   3   4   5   6   7   8   9