genome.fa.s7981.2.7.7.80.10.50.1000.7.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: VEPZ01007981.1 Hibiscus syriacus cultivar Beakdansim tig00110422_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1405786

Tables:   1   2   3   4   5   6   7   8   

This is table  7  of  8  ( 859 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)
1138036--1138161	43	3.0	41	80	5	110	31	23	16	27	1.96
1137914--1138146	129	1.8	128	81	3	288	33	23	18	24	1.96
1143001--1143061	26	2.3	27	82	5	70	6	3	16	73	1.17
1143036--1143060	11	2.3	11	100	0	50	0	0	16	84	0.63
1144677--1144706	15	1.9	16	93	6	53	50	3	0	46	1.18
1144707--1144772	28	2.3	29	86	2	89	36	4	0	59	1.18
1144934--1145059	59	2.2	58	85	9	168	45	0	8	45	1.40
1144986--1145028	14	3.1	14	79	0	59	46	0	2	51	1.13
1144968--1145059	30	3.1	30	73	9	107	46	0	8	44	1.34
1144979--1145073	31	3.2	31	73	8	99	51	0	6	42	1.27
1145389--1145417	10	2.7	11	89	10	51	62	0	0	37	0.96
1145446--1145504	16	3.9	16	76	17	72	28	27	23	20	1.99
1145436--1145502	28	2.4	28	100	0	134	28	25	25	20	1.99
1147032--1147088	22	2.7	21	79	20	66	42	0	1	56	1.10
1147040--1147080	19	2.2	19	91	8	66	41	0	0	58	0.98
1147866--1147939	3	25.3	3	91	5	125	63	1	0	35	1.03
1147860--1147939	20	4.0	20	93	1	133	62	1	1	35	1.11
1150458--1150487	2	15.0	2	100	0	60	50	0	0	50	1.00
1150489--1150538	23	2.2	23	92	3	84	44	12	10	34	1.75
1156609--1156681	23	3.2	23	80	1	76	39	21	21	16	1.92
1158125--1158170	19	2.4	19	88	0	65	47	15	17	19	1.82
1159392--1159430	19	2.1	19	85	9	53	23	35	10	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1167585--1167682	37	2.6	37	95	0	169	26	17	18	37	1.93
1168432--1168473	21	2.0	21	85	0	57	30	16	23	28	1.96
1174173--1174233	21	2.9	22	78	7	72	24	29	26	19	1.99
1181410--1181510	37	2.7	37	89	0	148	28	19	17	33	1.95
1184842--1185050	65	3.3	63	78	12	203	30	22	19	26	1.98
1192286--1192329	21	2.1	21	82	0	52	9	43	15	31	1.79
1193375--1193517	65	2.2	65	85	6	184	30	23	20	26	1.98
1204428--1204452	12	2.1	12	100	0	50	20	16	24	40	1.91
1211319--1211395	41	1.9	38	82	7	91	19	25	35	19	1.95
1211361--1211466	51	2.1	50	80	5	115	26	25	27	20	1.99
1211977--1212026	23	2.2	23	82	7	57	38	12	16	34	1.85
1211989--1212035	23	2.0	23	91	0	76	38	8	17	36	1.80
1212041--1212743	198	3.5	195	80	7	684	31	13	14	40	1.85
1214148--1214902	199	3.8	199	87	2	1041	28	13	15	42	1.85
1214148--1214902	398	1.9	400	89	1	1167	28	13	15	42	1.85
1215533--1215616	30	2.8	30	81	0	96	30	28	21	19	1.97
1215592--1215715	31	4.0	31	78	8	126	31	20	17	29	1.96
1215596--1215715	63	1.9	62	85	8	163	31	20	17	30	1.96
1220654--1221992	181	7.5	180	85	4	1594	27	15	12	44	1.83
1220981--1221291	163	1.9	163	86	1	444	27	12	13	46	1.80
1221928--1221966	20	1.9	21	89	5	62	15	15	23	46	1.83
1223669--1223724	24	2.3	24	96	0	103	30	17	14	37	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1223957--1224012	9	5.5	11	75	23	52	5	30	26	37	1.79
1223996--1224034	20	2.0	20	85	10	53	5	30	23	41	1.76
1248856--1248911	21	2.5	24	82	8	64	64	1	5	28	1.26
1248883--1248920	16	2.4	16	82	4	51	63	0	5	31	1.17
1249002--1249041	17	2.3	18	91	4	64	67	0	2	30	1.04
1249260--1249718	228	2.0	230	99	0	904	34	19	15	31	1.93
1249829--1249966	37	3.8	36	84	6	172	29	14	13	42	1.84
1249863--1249963	34	2.9	35	91	8	161	27	14	13	43	1.84
1250512--1251167	105	6.3	105	89	5	904	21	18	26	33	1.96
1250511--1251167	207	3.2	205	87	6	887	22	18	26	33	1.96
1251842--1252116	36	7.9	35	75	14	192	41	15	18	24	1.90
1251975--1252132	36	4.4	35	78	11	151	38	14	19	27	1.91
1252094--1252228	72	1.9	72	83	6	168	40	15	17	26	1.89
1252562--1252597	18	2.0	18	88	0	54	41	30	8	19	1.81
1258532--1258569	16	2.4	16	82	4	51	63	0	5	31	1.17
1259252--1259389	37	3.8	36	84	6	172	29	14	13	42	1.84
1259286--1259386	34	2.9	35	91	8	161	27	14	13	43	1.84
1268725--1268798	29	2.5	28	82	8	85	39	25	5	29	1.78
1268835--1268876	18	2.3	18	95	0	75	11	19	52	16	1.74
1275955--1276029	29	2.6	28	81	8	78	41	24	5	29	1.77
1276064--1276123	18	3.4	18	93	2	104	11	21	50	16	1.77
1276126--1276177	9	5.3	10	80	11	63	38	30	17	13	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1279452--1279485	18	1.9	18	88	5	52	17	26	29	26	1.98
1282663--1282687	7	3.6	7	100	0	50	0	76	0	24	0.80
1284707--1284795	23	3.8	24	81	12	96	33	23	24	17	1.96
1284707--1284795	46	1.9	46	84	4	117	33	23	24	17	1.96
1285842--1285891	2	25.0	2	100	0	100	50	0	0	50	1.00
1286046--1286095	19	2.7	18	84	3	55	54	14	0	32	1.40
1290512--1290564	23	2.3	22	81	15	54	39	20	5	33	1.76
1291299--1291330	2	16.0	2	100	0	64	50	0	0	50	1.00
1291509--1291551	17	2.4	17	84	7	50	55	23	0	20	1.43
1291519--1291552	17	2.1	16	89	10	52	55	23	0	20	1.43
1298961--1299011	18	2.8	18	93	0	84	29	33	19	17	1.95
1302121--1302172	23	2.3	22	80	6	59	30	26	21	21	1.98
1302724--1302922	55	3.6	55	84	2	231	31	21	17	30	1.96
1309249--1309274	13	2.0	13	100	0	52	61	7	0	30	1.24
1309551--1309695	55	2.6	55	83	0	182	30	20	17	31	1.96
1309991--1310034	17	2.6	17	92	0	79	27	25	22	25	2.00
1313653--1313860	81	2.6	80	83	6	251	28	21	12	37	1.91
1313812--1313915	31	3.2	31	69	19	93	29	24	11	34	1.90
1313812--1314136	68	4.8	68	91	0	506	30	23	14	31	1.94
1314483--1314649	59	2.9	58	82	1	199	35	20	10	33	1.86
1315097--1315139	21	2.0	21	95	0	77	30	18	20	30	1.97
1319161--1319383	81	2.7	81	86	5	288	26	24	10	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1319352--1319744	68	5.8	68	90	0	624	30	23	13	32	1.93
1321439--1321554	32	3.7	31	81	12	146	31	18	18	32	1.94
1321409--1321574	63	2.7	63	95	0	289	31	18	18	32	1.94
1321385--1321571	31	5.9	32	78	11	199	30	18	18	32	1.95
1326116--1326309	31	6.2	31	76	10	182	31	19	17	31	1.95
1326183--1326289	32	3.4	32	78	12	130	30	19	15	33	1.93
1326144--1326309	63	2.7	63	92	0	271	32	18	16	32	1.93
1327077--1327233	64	2.5	64	75	10	151	26	20	21	31	1.98
1329686--1329730	3	15.0	3	100	0	90	66	0	0	33	0.92
1330254--1330329	30	2.5	30	82	4	100	48	13	13	25	1.78
1330784--1330825	21	2.0	21	86	4	59	47	2	0	50	1.14
1331012--1331098	34	2.7	32	90	3	129	60	8	13	17	1.56
1331014--1331098	32	2.6	34	90	3	129	62	8	11	17	1.53
1335802--1335860	31	1.9	31	82	0	73	32	16	6	44	1.74
1337693--1337884	40	4.8	40	87	3	244	33	18	10	38	1.85
1337682--1337884	80	2.5	80	88	3	284	32	18	10	38	1.85
1337785--1337851	20	3.3	20	65	8	55	38	11	8	40	1.74
1343645--1343683	21	1.9	20	85	15	53	74	5	0	20	1.01
1347435--1348769	670	2.0	664	97	0	2490	33	17	10	37	1.85
1350260--1350351	29	3.2	29	95	0	157	18	32	25	23	1.97
1350558--1350589	15	2.0	17	88	11	50	46	6	15	31	1.71
1352419--1352470	25	2.1	25	92	0	86	32	7	3	55	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1353538--1353581	22	2.1	20	83	8	52	18	13	2	65	1.36
1357267--1357310	21	2.0	23	86	8	65	34	20	2	43	1.64
1361567--1361618	21	2.4	21	84	9	61	34	19	1	44	1.62
1362186--1362242	22	2.8	21	75	20	57	28	21	19	31	1.97
1362265--1362306	21	1.9	23	90	9	70	28	28	9	33	1.88
1365871--1365993	51	2.4	51	85	6	160	29	21	10	39	1.87
1368695--1368723	13	2.2	13	100	0	58	86	0	6	6	0.72
1372675--1372897	36	6.2	36	78	6	218	26	21	13	38	1.91
1372675--1372884	73	2.9	72	82	7	237	27	21	13	38	1.90
1372675--1372878	37	5.6	36	78	5	223	26	22	13	38	1.91

Tables:   1   2   3   4   5   6   7   8