genome.fa.s5349.2.7.7.80.10.50.1000.6.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: VEPZ01005349.1 Hibiscus syriacus cultivar Beakdansim tig00012136_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1796274

Tables:   1   2   3   4   5   6   7   8   

This is table  6  of  8  ( 858 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)
1260645--1260757	37	3.1	36	79	12	115	28	19	10	41	1.85
1260513--1260891	175	2.1	176	85	4	521	31	18	12	37	1.88
1260922--1260993	30	2.3	32	81	13	87	34	16	13	34	1.89
1260934--1260992	31	1.9	31	90	10	95	28	15	15	40	1.87
1261058--1261246	64	2.9	64	79	9	204	29	10	15	44	1.79
1261249--1261393	29	4.9	29	76	15	120	31	12	13	43	1.80
1261293--1261405	29	4.0	27	77	17	97	31	7	15	45	1.75
1261428--1261495	29	2.5	25	72	19	64	27	13	13	45	1.80
1261439--1261532	29	3.2	29	80	1	116	30	15	11	41	1.83
1261856--1261977	63	1.9	64	83	6	158	31	10	13	43	1.79
1262120--1262186	31	2.2	31	86	5	93	25	17	16	40	1.90
1262120--1262202	29	2.8	29	83	7	78	25	16	16	40	1.90
1262205--1262562	134	2.7	134	87	0	500	25	31	18	24	1.97
1262762--1262834	3	24.7	3	83	8	96	32	2	1	63	1.17
1264579--1264612	16	2.0	18	88	11	54	26	2	5	64	1.30
1265074--1265321	130	1.9	130	91	0	406	36	13	14	35	1.86
1265717--1265792	35	2.2	35	90	0	116	35	1	22	40	1.62
1266220--1266289	29	2.4	30	90	2	106	20	12	10	57	1.64
1266220--1266299	29	2.7	30	86	3	101	20	13	8	57	1.62
1266279--1266377	29	3.4	30	75	18	84	21	16	10	52	1.72
1266369--1266437	29	2.4	28	85	4	84	14	17	10	57	1.63
1266369--1266437	30	2.4	27	83	9	75	14	17	10	57	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1266369--1266461	29	3.2	29	80	9	82	13	15	9	61	1.57
1266504--1266552	22	2.1	24	82	14	59	16	4	10	69	1.32
1271904--1272165	79	3.3	79	88	5	359	32	26	19	21	1.97
1275109--1275370	79	3.3	80	88	3	377	32	26	19	20	1.97
1277731--1277755	9	2.8	9	100	0	50	12	12	0	76	1.04
1279534--1279563	2	15.0	2	100	0	60	50	0	0	50	1.00
1282139--1282181	14	3.1	14	90	3	61	60	18	11	9	1.57
1282349--1282426	24	3.2	24	78	7	70	55	15	11	17	1.69
1287395--1287436	3	14.0	3	90	9	68	66	0	0	33	0.92
1287395--1287437	22	2.0	21	95	4	77	67	0	0	32	0.91
1287694--1287888	46	4.4	45	71	17	158	25	19	28	26	1.99
1287740--1287936	43	4.6	43	72	13	154	23	19	30	26	1.98
1287691--1287929	46	5.5	41	71	13	119	24	19	29	26	1.99
1287652--1287969	129	2.5	129	92	1	514	24	18	30	25	1.98
1288178--1288343	66	2.6	65	78	4	167	37	15	21	25	1.92
1288319--1288393	35	2.1	36	85	7	100	33	10	18	37	1.86
1288547--1288907	65	5.6	64	71	9	207	41	12	17	29	1.86
1289088--1289302	67	3.3	65	85	5	256	46	12	11	29	1.76
1289148--1289269	37	3.5	35	73	15	119	45	10	12	31	1.76
1289130--1289297	67	2.5	67	92	1	268	47	11	11	29	1.74
1289185--1289313	28	4.1	30	75	15	127	45	12	10	31	1.75
1289301--1289404	52	2.0	53	94	3	183	36	17	13	32	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1289415--1289583	59	3.0	57	88	5	254	44	14	10	30	1.79
1289424--1289583	28	5.6	29	83	6	209	43	13	10	31	1.78
1289824--1289927	36	3.0	36	80	4	124	36	10	19	33	1.86
1289862--1289943	36	2.3	36	80	4	103	39	10	19	30	1.86
1289895--1290127	105	2.3	101	83	9	267	36	12	21	30	1.89
1290101--1290195	36	2.6	36	78	3	93	35	11	17	34	1.86
1290285--1290402	36	3.3	35	81	12	150	35	12	16	35	1.86
1291054--1291098	24	1.9	24	90	4	74	46	4	8	40	1.55
1297942--1297983	3	14.0	3	90	9	68	66	0	0	33	0.92
1297942--1297984	22	2.0	21	95	4	77	67	0	0	32	0.91
1299205--1299235	15	2.1	15	93	0	53	54	0	0	45	0.99
1303603--1303789	65	2.9	63	77	10	191	33	20	16	30	1.94
1303634--1303789	65	2.4	64	86	3	197	32	19	16	31	1.94
1304662--1304690	2	14.5	2	100	0	58	48	0	0	51	1.00
1313723--1313757	17	2.1	17	100	0	70	28	31	17	22	1.96
1317191--1317264	24	3.1	24	82	0	94	21	8	17	52	1.70
1319254--1319314	30	2.1	28	82	8	70	36	6	13	44	1.69
1319263--1319321	30	2.0	30	90	3	93	35	6	11	45	1.67
1319401--1319496	21	4.6	21	74	8	88	27	31	16	25	1.97
1319465--1319575	20	5.8	20	67	19	58	28	27	18	25	1.98
1319931--1320000	34	2.1	32	89	5	104	31	15	31	21	1.95
1320858--1320905	19	2.5	20	86	3	62	50	6	14	29	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1320913--1320956	23	2.0	22	86	4	61	50	4	18	27	1.66
1322129--1322187	30	2.0	30	90	3	93	38	8	10	42	1.69
1322267--1322364	21	4.7	21	82	10	103	25	32	18	23	1.97
1322269--1322440	20	8.7	19	76	12	84	25	31	18	25	1.97
1324867--1325106	121	2.0	122	96	0	446	30	26	16	26	1.97
1326142--1326166	12	2.1	12	100	0	50	24	0	8	68	1.16
1328088--1328208	57	2.0	61	82	6	151	47	1	4	47	1.31
1328548--1328590	23	1.9	22	81	13	52	23	27	6	41	1.80
1337943--1337973	16	1.9	16	100	0	62	29	0	25	45	1.54
1338540--1338573	16	2.1	16	88	0	50	50	0	2	47	1.16
1338615--1338648	16	2.0	18	88	11	54	26	2	5	64	1.30
1339115--1339362	130	1.9	130	93	0	424	35	13	15	35	1.87
1339759--1339835	35	2.2	36	90	2	120	35	1	23	40	1.63
1355655--1355779	65	1.9	65	100	0	250	47	22	8	21	1.78
1356520--1356645	24	5.2	24	86	3	146	28	12	19	39	1.88
1356523--1356583	12	5.2	11	72	14	50	29	13	18	39	1.88
1356725--1356791	35	1.9	35	93	6	118	8	31	28	31	1.88
1361208--1361322	24	4.8	24	83	4	151	25	14	21	38	1.92
1361220--1361282	12	5.2	12	73	21	60	25	15	22	36	1.94
1361406--1361472	35	1.9	35	96	0	125	8	29	28	32	1.88
1364756--1364919	76	2.2	76	87	3	233	55	11	3	29	1.51
1366776--1366814	20	2.0	20	95	5	71	84	5	0	10	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1373151--1373179	13	2.2	13	100	0	58	27	6	24	41	1.80
1374048--1374181	42	3.2	42	78	2	180	32	22	20	24	1.98
1374037--1374185	42	3.6	42	76	1	165	32	22	18	26	1.97
1374033--1374186	83	1.9	83	95	0	281	33	21	19	25	1.97
1374390--1375253	36	23.8	36	83	3	840	21	19	22	36	1.95
1377318--1377355	2	19.5	2	94	5	69	47	0	0	52	1.00
1379464--1379497	6	5.5	6	89	6	50	55	14	11	17	1.68
1379464--1379497	13	2.8	12	86	8	50	55	14	11	17	1.68
1381549--1381600	22	2.4	22	96	0	95	21	15	17	46	1.84
1381592--1381650	19	3.0	19	83	9	82	10	25	22	42	1.84
1386867--1386941	24	3.1	23	76	16	73	42	18	14	24	1.88
1386877--1386959	12	6.8	13	63	15	52	39	21	16	21	1.92
1386877--1386974	48	2.0	48	88	7	146	40	18	17	23	1.91
1386877--1386974	24	4.1	24	86	2	126	40	18	17	23	1.91
1392202--1392256	21	2.8	20	75	10	51	54	16	0	29	1.42
1392223--1392414	64	2.8	69	82	10	198	57	12	2	28	1.47
1397797--1397864	34	2.0	34	85	5	93	63	11	8	16	1.52
1399261--1399319	23	2.6	22	86	5	73	11	16	16	54	1.71
1400533--1400557	13	1.9	13	100	0	50	84	0	8	8	0.79
1400574--1400662	43	2.1	43	100	0	178	42	7	17	31	1.78
1402280--1402328	15	3.3	15	85	2	64	6	24	12	57	1.58
1402486--1402534	21	2.3	22	86	6	66	20	0	10	69	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1402563--1402597	18	1.9	18	88	11	54	14	31	28	25	1.95
1403125--1403180	20	2.7	21	86	10	71	35	0	1	62	1.06
1403205--1403318	59	1.9	59	92	0	192	35	21	9	33	1.86
1403461--1403514	27	1.9	29	85	7	76	48	5	16	29	1.69
1403525--1403559	14	2.5	14	90	0	52	34	14	20	31	1.92
1403723--1403762	20	2.0	20	85	9	55	40	0	0	60	0.97
1403853--1403917	22	3.0	22	82	11	71	46	0	3	50	1.17
1403890--1403957	33	2.1	33	86	5	93	47	1	2	48	1.26
1404205--1404295	42	2.2	43	86	6	132	50	15	14	19	1.78
1406877--1406935	3	19.7	3	92	0	91	62	0	3	33	1.12

Tables:   1   2   3   4   5   6   7   8