genome.fa.s7993.2.7.7.80.10.50.1000.7.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: VEPZ01007993.1 Hibiscus syriacus cultivar Beakdansim tig00110443_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2245901

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

This is table  7  of  12  ( 1410 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)
1246715--1246770	13	4.0	13	80	15	67	66	1	1	30	1.12
1246697--1246768	10	6.8	10	72	21	58	66	1	2	29	1.14
1246697--1246772	23	3.4	21	75	22	75	65	1	2	30	1.14
1246718--1246758	16	2.5	16	88	4	55	65	2	2	29	1.18
1246924--1246948	11	2.3	11	100	0	50	44	8	8	40	1.63
1246902--1247033	36	3.6	37	80	14	141	43	8	3	44	1.52
1247019--1247092	2	37.0	2	100	0	148	50	0	0	50	1.00
1247081--1247167	38	2.3	36	81	11	95	45	5	4	43	1.48
1247442--1247500	20	3.0	20	87	0	73	42	22	18	16	1.89
1247761--1247804	22	2.0	22	95	0	79	18	15	45	20	1.85
1247972--1248109	61	2.3	61	84	0	186	24	17	23	34	1.96
1247972--1248106	20	6.7	20	79	7	112	25	17	23	33	1.96
1247972--1248127	61	2.6	61	80	2	152	23	19	23	33	1.97
1248177--1248217	21	2.0	21	85	0	55	34	31	17	17	1.93
1248482--1248613	60	2.2	59	85	4	167	31	19	17	31	1.95
1249800--1249851	20	2.6	20	79	11	70	53	0	0	46	1.00
1254101--1254179	39	2.0	39	95	4	142	27	36	15	20	1.92
1254916--1254950	16	2.2	16	100	0	70	40	0	11	48	1.39
1256038--1256170	60	2.2	60	82	5	153	29	17	19	33	1.95
1258761--1258824	30	2.1	30	82	2	74	42	3	14	40	1.61
1258876--1258947	30	2.4	30	81	6	74	43	1	16	38	1.57
1259714--1259804	23	3.8	24	76	14	89	41	1	1	56	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1259754--1259796	15	2.8	15	85	3	50	39	2	2	55	1.25
1262871--1262950	21	3.8	21	89	1	124	26	8	17	47	1.76
1263303--1263329	13	2.1	13	100	0	54	51	0	29	18	1.46
1265134--1265169	3	12.0	3	100	0	72	33	0	0	66	0.92
1265177--1265209	13	2.5	13	95	0	57	57	9	0	33	1.30
1272462--1272513	19	2.6	20	90	6	79	44	5	13	36	1.68
1274613--1274914	54	5.6	54	85	2	367	32	18	16	31	1.94
1274613--1274914	107	2.8	108	87	1	401	32	18	16	31	1.94
1274613--1274939	161	2.0	160	84	4	417	32	19	17	31	1.95
1282228--1282512	54	5.3	54	85	0	354	31	19	18	29	1.96
1284724--1284808	38	2.2	38	85	6	109	30	12	24	31	1.93
1286050--1287279	250	4.9	250	90	1	1973	33	15	16	35	1.90
1286420--1286520	42	2.4	42	86	1	132	25	19	19	34	1.96
1286668--1286767	42	2.4	41	76	5	103	29	19	18	34	1.95
1286918--1286999	42	2.0	42	85	9	114	25	18	19	36	1.94
1286050--1287279	499	2.5	499	91	1	1982	33	15	16	35	1.90
1287168--1287249	42	2.0	42	82	0	101	29	17	18	35	1.93
1287428--1287457	3	10.0	3	92	0	51	33	3	0	63	1.11
1287661--1287717	29	2.0	29	85	0	78	40	8	17	33	1.81
1295511--1295563	27	2.0	27	96	0	97	39	3	18	37	1.69
1296387--1296485	36	2.8	36	93	0	162	26	14	18	41	1.88
1302996--1303053	28	2.1	28	100	0	116	22	15	20	41	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1303871--1303982	56	2.0	56	92	0	188	37	11	6	44	1.66
1305078--1305256	89	2.0	89	95	0	322	31	11	19	37	1.87
1307180--1307212	2	16.5	2	100	0	66	48	0	0	51	1.00
1307769--1308016	122	2.0	122	96	0	451	35	27	15	21	1.94
1310145--1310179	13	2.8	12	87	8	52	48	0	0	51	1.00
1310473--1310518	23	2.0	23	84	12	60	41	2	2	54	1.25
1319191--1319260	35	2.0	35	91	5	115	38	15	14	31	1.88
1324941--1325027	31	2.8	31	81	6	86	34	14	21	28	1.94
1333661--1333853	80	2.4	81	77	7	194	32	18	19	30	1.96
1333835--1333927	41	2.3	40	85	9	125	31	17	19	32	1.95
1343137--1343231	43	2.2	43	94	0	163	24	27	17	30	1.97
1343160--1343235	22	3.5	22	63	10	57	27	27	15	28	1.96
1357045--1357096	2	26.0	2	100	0	104	50	0	0	50	1.00
1357809--1357865	22	2.6	22	97	0	105	31	26	21	21	1.98
1360448--1360611	42	3.8	43	82	3	179	25	23	17	33	1.96
1360448--1360623	43	4.1	43	82	2	203	24	22	18	34	1.96
1360448--1360611	85	1.9	86	83	3	215	25	23	17	33	1.96
1361411--1361459	19	2.5	19	83	6	53	53	4	6	36	1.45
1371888--1371912	9	2.8	9	100	0	50	20	0	0	80	0.72
1374890--1374925	16	2.3	15	90	4	54	52	8	30	8	1.61
1375143--1375180	19	2.0	19	94	0	67	39	15	13	31	1.86
1379127--1379192	30	2.3	28	79	10	71	45	1	4	48	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1379173--1379218	23	2.0	24	91	4	76	43	0	0	56	0.99
1379177--1379234	12	4.8	12	77	10	64	48	0	0	51	1.00
1379835--1379884	26	1.9	25	84	15	66	48	6	2	44	1.39
1382209--1382233	12	2.1	12	100	0	50	60	0	0	40	0.97
1383610--1383922	37	8.8	37	80	13	259	45	6	3	44	1.46
1383832--1383909	33	2.4	32	80	4	95	46	7	2	43	1.46
1384602--1385256	84	7.9	84	79	5	713	24	20	24	30	1.98
1384603--1385256	249	2.6	249	90	2	1024	24	20	24	30	1.98
1384595--1385256	165	4.0	165	79	6	710	24	20	24	30	1.99
1386411--1386598	95	2.0	94	86	3	261	31	17	17	34	1.92
1389945--1389971	14	1.9	14	100	0	54	81	0	7	11	0.87
1390042--1390293	36	6.9	35	77	18	177	45	5	4	44	1.48
1390032--1390293	109	2.4	108	84	8	327	45	5	4	44	1.46
1390256--1390280	11	2.3	11	100	0	50	44	8	8	40	1.63
1390251--1390326	32	2.4	32	84	4	100	44	6	3	44	1.48
1390382--1390423	2	21.0	2	90	0	57	47	4	2	45	1.36
1390696--1390755	32	2.0	29	81	15	70	61	1	11	25	1.39
1390972--1391000	4	7.2	4	100	0	58	24	0	0	75	0.80
1390996--1391044	3	16.3	3	100	0	98	32	0	0	67	0.91
1398116--1398293	65	2.7	65	83	5	205	28	21	10	39	1.86
1398292--1398590	134	2.3	131	82	1	355	26	32	16	24	1.96
1398921--1398971	20	2.4	23	81	15	65	37	0	0	62	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1398940--1398969	14	2.1	15	93	6	53	33	0	0	66	0.92
1400184--1400223	20	2.0	21	85	5	55	35	12	5	47	1.63
1403100--1403128	14	2.0	15	93	6	51	48	0	0	51	1.00
1403091--1403162	20	3.3	22	75	16	78	44	1	0	54	1.08
1403105--1403169	20	3.2	19	72	20	51	46	3	0	50	1.17
1404854--1404903	21	2.4	21	90	3	75	54	4	0	42	1.19
1404918--1404951	17	2.0	17	88	0	50	61	0	2	35	1.11
1405707--1405748	3	14.0	3	100	0	84	33	0	0	66	0.92
1407478--1407569	29	3.2	28	75	13	89	32	1	14	52	1.49
1408289--1408315	3	9.0	3	100	0	54	66	0	0	33	0.92
1409971--1410012	20	2.2	19	86	4	57	64	2	0	33	1.07
1409880--1410116	120	2.0	121	81	9	279	44	8	9	37	1.66
1411633--1411700	3	22.0	3	88	5	100	63	0	0	36	0.95
1411949--1412141	84	2.3	83	88	2	278	30	16	16	37	1.90
1412206--1412942	113	6.6	113	84	7	918	28	18	14	38	1.90
1412246--1412907	329	2.0	327	90	3	1028	29	18	14	37	1.91
1412206--1412942	216	3.3	223	86	5	962	28	18	14	38	1.90
1412911--1412973	30	2.1	30	93	0	108	25	20	9	44	1.82
1412685--1413198	256	2.0	255	92	1	850	27	19	14	38	1.91
1412556--1413311	369	2.0	369	98	0	1449	28	19	14	38	1.90
1412799--1413085	143	2.0	143	92	0	475	27	18	13	40	1.89
1412941--1413342	113	3.6	112	90	2	599	29	19	14	36	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1413750--1413826	22	3.5	22	87	0	109	38	14	12	33	1.84
1416361--1416583	114	2.0	114	93	0	383	30	20	15	33	1.93
1418820--1418870	26	2.0	26	84	7	68	0	15	0	84	0.63
1418826--1418859	10	3.4	10	100	0	68	0	8	0	91	0.43
1422070--1422121	14	3.6	14	86	2	59	53	9	15	21	1.70
1424211--1424252	20	2.2	19	86	4	57	64	2	0	33	1.07
1424120--1424356	120	2.0	121	79	9	261	45	8	8	37	1.65
1424984--1425161	88	2.0	88	94	0	311	24	29	6	39	1.81
1425963--1426024	3	20.0	3	83	6	79	61	0	0	38	0.96
1425958--1426024	31	2.2	30	86	5	91	59	0	0	40	0.97

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