genome.fa.s7823.2.7.7.80.10.50.1000.7.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: VEPZ01007823.1 Hibiscus syriacus cultivar Beakdansim tig00110160_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6287495

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   

This is table  7  of  33  ( 3920 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)
1181089--1181170	30	2.8	30	96	1	148	53	6	0	40	1.26
1181455--1181657	21	9.8	21	76	13	197	21	20	24	33	1.97
1181476--1181629	63	2.5	63	92	2	249	20	19	25	33	1.96
1182505--1182678	42	4.2	42	85	5	230	34	24	19	21	1.96
1182502--1182678	21	8.5	21	75	10	159	33	23	19	22	1.97
1182502--1182678	82	2.1	83	87	6	252	33	23	19	22	1.97
1183766--1183800	3	12.0	3	93	6	63	34	0	0	65	0.93
1184737--1184801	3	21.0	3	73	17	53	32	3	1	63	1.19
1184737--1184801	30	2.2	30	86	2	87	32	3	1	63	1.19
1184746--1184788	17	2.4	18	84	3	52	30	4	0	65	1.13
1190282--1190313	15	2.1	15	94	0	55	25	18	9	46	1.79
1194552--1194594	20	2.2	20	86	0	59	34	20	13	30	1.92
1197198--1197236	20	2.0	20	95	5	71	64	0	25	10	1.25
1204925--1204967	10	4.3	10	85	11	52	32	20	16	30	1.95
1204915--1204957	20	2.2	20	86	0	59	34	20	13	30	1.92
1204941--1204968	10	2.8	10	100	0	56	32	17	21	28	1.96
1209801--1209839	17	2.3	17	86	0	60	89	0	10	0	0.48
1211378--1212003	120	5.5	109	76	12	514	39	13	17	29	1.88
1211677--1211868	105	1.8	104	93	1	330	40	12	18	28	1.87
1211456--1211986	228	2.3	229	90	3	811	40	13	18	28	1.88
1212235--1212312	3	26.0	3	79	10	88	33	2	0	64	1.08
1224424--1224472	23	2.1	23	85	7	64	28	2	12	57	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1224967--1224998	11	2.9	11	95	0	55	15	9	9	65	1.46
1226480--1226523	15	2.9	15	89	0	70	47	22	13	15	1.81
1232151--1232203	24	2.2	24	86	0	70	24	33	16	24	1.96
1234216--1234264	23	2.1	23	85	7	64	28	2	12	57	1.46
1234719--1234749	11	2.8	11	95	0	53	16	9	9	64	1.48
1239210--1239252	4	10.8	4	100	0	86	25	0	0	74	0.82
1240016--1240062	21	2.2	21	96	0	85	46	12	14	25	1.80
1241522--1241561	21	2.0	21	85	5	55	32	27	22	17	1.96
1244681--1244719	19	2.2	17	86	9	51	25	7	0	66	1.18
1245059--1245288	100	2.3	100	88	5	356	23	19	31	25	1.98
1246324--1246383	22	2.7	21	72	22	59	66	1	0	31	1.01
1247074--1247147	29	2.6	28	82	12	89	52	14	1	31	1.50
1250478--1250519	20	2.1	20	100	0	84	45	0	19	35	1.50
1251383--1251456	21	3.6	21	90	3	114	29	25	21	22	1.99
1251383--1251475	41	2.3	41	83	7	109	31	23	21	23	1.99
1251554--1251671	21	5.6	21	72	15	109	20	19	25	34	1.96
1251560--1251695	42	3.2	42	100	0	272	21	18	24	36	1.95
1251579--1251692	21	5.4	21	72	15	110	21	19	22	36	1.95
1252519--1252695	21	8.4	21	76	14	168	37	20	19	21	1.94
1252516--1252632	42	2.8	42	94	0	207	37	22	19	20	1.94
1252564--1252695	63	2.1	63	94	0	228	38	19	20	21	1.93
1252627--1252714	42	2.1	42	97	0	167	36	22	19	21	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1252522--1252714	105	1.8	105	96	0	359	37	21	19	21	1.95
1252519--1252720	21	9.6	21	74	14	134	37	21	19	21	1.95
1252564--1252720	63	2.5	62	86	4	199	37	21	20	21	1.94
1252777--1252936	21	7.6	20	82	8	85	36	23	18	21	1.95
1252798--1252911	42	2.7	40	80	15	140	38	21	17	22	1.93
1252582--1252974	216	1.8	214	88	4	601	35	20	20	23	1.96
1252580--1252963	195	2.0	192	83	11	487	36	20	19	23	1.95
1256844--1256895	20	2.6	19	82	14	61	67	3	13	15	1.37
1258802--1258828	3	9.0	3	100	0	54	66	0	0	33	0.92
1263852--1263894	18	2.4	18	88	7	61	62	6	30	0	1.21
1268651--1268693	21	2.1	21	83	8	54	16	0	11	72	1.13
1273323--1273379	2	28.0	2	96	3	105	49	0	1	49	1.11
1274703--1274743	19	2.0	21	86	9	59	26	7	0	65	1.18
1285502--1285595	48	1.9	49	86	2	136	46	14	23	14	1.82
1286333--1287105	105	7.4	105	97	0	1433	32	24	19	23	1.97
1287382--1287438	2	28.5	2	92	7	98	49	0	1	49	1.11
1288163--1288195	17	1.9	17	93	0	57	12	33	48	6	1.65
1297549--1297585	2	18.5	2	100	0	74	48	0	0	51	1.00
1297933--1298036	2	53.0	2	96	3	194	49	0	0	50	1.00
1299790--1299951	80	2.0	82	97	2	310	22	18	26	32	1.97
1307557--1307683	20	6.3	20	75	7	123	37	20	20	22	1.95
1307557--1307663	41	2.6	41	95	1	189	38	20	20	20	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1307554--1307724	81	2.1	81	78	8	179	36	20	18	23	1.95
1308535--1308581	24	2.0	24	95	0	85	21	21	21	36	1.96
1310984--1311070	20	4.4	20	82	2	106	37	24	20	17	1.93
1311075--1311160	19	4.8	18	76	16	90	45	18	23	12	1.84
1311171--1311294	32	3.8	32	90	6	178	14	24	20	41	1.89
1311171--1311294	63	1.9	67	86	8	184	14	24	20	41	1.89
1313343--1313427	19	4.7	19	75	16	63	44	22	18	14	1.85
1313309--1313402	33	2.9	32	77	4	100	47	22	18	11	1.80
1313377--1313427	20	2.6	19	93	3	84	39	23	21	15	1.92
1313453--1313591	20	7.5	20	82	13	174	18	19	22	39	1.92
1313437--1313589	33	4.3	36	75	17	96	18	20	22	39	1.93
1313451--1313589	52	2.5	56	78	18	166	18	20	22	38	1.93
1315320--1315389	20	3.5	20	88	0	77	41	24	17	17	1.89
1315757--1315828	22	3.5	22	70	14	62	19	16	36	27	1.93
1315990--1316063	20	3.7	20	78	3	85	22	20	20	36	1.95
1322855--1322939	30	2.8	30	81	13	86	49	1	3	45	1.26
1322854--1323024	17	10.2	16	70	16	98	49	2	4	43	1.36
1322930--1322974	13	3.3	13	87	6	63	48	6	4	40	1.49
1322854--1322967	32	3.7	30	76	14	97	49	2	4	43	1.36
1322928--1322974	15	3.3	14	82	11	60	48	6	4	40	1.48
1322893--1322967	2	36.5	2	74	15	64	48	4	4	44	1.40
1322927--1323000	28	2.9	24	82	10	76	52	5	4	37	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1322979--1323093	52	2.3	51	80	8	128	44	2	6	46	1.44
1323391--1323617	18	12.0	20	74	13	94	50	3	4	41	1.41
1323407--1323448	2	20.0	2	85	9	57	50	2	2	45	1.27
1323519--1323645	2	63.0	2	80	13	145	49	0	3	45	1.26
1323593--1323695	18	5.9	18	74	18	85	52	1	6	38	1.39
1323743--1323769	14	1.9	14	100	0	54	62	0	0	37	0.95
1323745--1323854	19	5.5	19	79	15	100	56	1	5	36	1.33
1323747--1323846	33	3.0	34	75	21	95	57	2	6	35	1.35
1323899--1323951	17	3.6	14	72	22	54	41	3	3	50	1.38
1323851--1324039	73	2.5	77	81	11	194	36	9	2	51	1.49
1323955--1324013	20	2.9	19	75	9	55	40	10	1	47	1.47
1323980--1324059	27	2.8	28	73	17	76	36	7	2	53	1.43
1323915--1324138	81	2.8	79	82	14	220	37	7	2	52	1.41
1323992--1324145	8	20.1	8	75	19	95	36	7	1	54	1.39
1324027--1324180	55	2.8	55	77	19	139	38	5	1	53	1.36
1324076--1324181	2	56.5	2	68	25	63	40	3	0	54	1.25
1326113--1326215	7	14.6	7	74	20	72	54	1	6	36	1.38
1326107--1326195	22	4.2	21	83	12	96	55	2	5	37	1.36
1326111--1326210	35	2.8	36	86	9	132	55	2	6	37	1.36
1326111--1326214	36	2.9	36	87	8	140	53	1	6	37	1.38
1326179--1326223	16	3.1	16	75	21	53	51	0	6	42	1.28
1326216--1326272	18	2.9	19	73	17	55	42	5	1	50	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1326377--1326433	16	3.6	16	77	11	55	42	12	19	26	1.86
1326443--1326497	16	3.4	16	74	0	65	36	14	25	23	1.93
1328187--1328234	23	2.1	23	88	0	69	35	6	18	39	1.76
1328673--1329121	182	2.5	182	88	5	651	28	14	12	45	1.80
1328994--1329562	111	5.1	111	93	1	930	26	14	14	44	1.83
1328994--1329562	221	2.6	222	92	2	914	26	14	14	44	1.83
1332442--1332508	29	2.2	29	81	5	71	34	1	2	61	1.20
1333205--1333254	20	2.6	19	78	9	57	66	2	0	32	1.03
1333210--1333257	8	6.6	8	73	22	52	66	2	0	31	1.03
1333297--1333352	7	7.4	7	81	15	67	57	0	1	41	1.09

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33