genome.fa.s7768.2.7.7.80.10.50.1000.6.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: VEPZ01007768.1 Hibiscus syriacus cultivar Beakdansim tig00110044_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2539099

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

This is table  6  of  11  ( 1290 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)
1151826--1151890	33	2.0	33	96	0	121	26	16	15	41	1.88
1160629--1160663	18	1.9	18	94	0	61	22	20	22	34	1.97
1166725--1166809	31	2.8	31	92	1	136	55	4	8	31	1.50
1166736--1166788	17	3.3	17	69	15	58	56	5	5	32	1.46
1167186--1167273	37	2.6	31	72	20	77	47	4	0	47	1.22
1171247--1171272	9	2.9	9	100	0	52	11	23	34	30	1.90
1171281--1171381	31	3.2	32	85	13	138	15	44	22	16	1.86
1171348--1171394	8	6.5	8	77	22	59	14	38	25	21	1.92
1171295--1171353	18	3.3	18	95	0	100	16	47	22	13	1.82
1171281--1171387	13	8.3	13	79	14	91	15	43	22	17	1.87
1171364--1171395	7	4.4	7	92	7	55	12	34	28	25	1.92
1171348--1171394	15	3.3	15	91	5	71	14	38	25	21	1.92
1173547--1173655	24	4.5	24	74	4	94	21	14	16	47	1.82
1173813--1173853	2	20.5	2	100	0	82	48	0	0	51	1.00
1175314--1175937	309	2.0	313	95	3	1143	21	27	22	28	1.99
1176083--1176183	31	3.2	32	85	13	138	15	44	22	16	1.86
1176150--1176196	8	6.5	8	77	22	59	14	38	25	21	1.92
1176097--1176155	18	3.3	18	95	0	100	16	47	22	13	1.82
1176083--1176189	13	8.3	13	79	14	91	15	43	22	17	1.87
1176166--1176197	7	4.4	7	92	7	55	12	34	28	25	1.92
1176150--1176196	15	3.3	15	91	5	71	14	38	25	21	1.92
1177439--1177474	18	2.0	18	88	0	54	52	0	16	30	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1180807--1180907	31	3.2	32	85	13	138	15	44	22	16	1.86
1180874--1180920	8	6.5	8	77	22	59	14	38	25	21	1.92
1180821--1180879	18	3.3	18	95	0	100	16	47	22	13	1.82
1180807--1180913	13	8.3	13	79	14	91	15	43	22	17	1.87
1180890--1180921	7	4.4	7	92	7	55	12	34	28	25	1.92
1180874--1180920	15	3.3	15	91	5	71	14	38	25	21	1.92
1182227--1182262	18	2.0	18	88	0	54	52	0	16	30	1.44
1183389--1183497	24	4.5	24	74	4	94	21	14	16	47	1.82
1183658--1183686	2	14.5	2	100	0	58	48	0	0	51	1.00
1189886--1189912	2	13.5	2	100	0	54	51	0	0	48	1.00
1198289--1198349	23	2.7	23	100	0	122	37	3	9	49	1.52
1200418--1200460	22	2.0	22	95	0	77	34	9	27	27	1.88
1202919--1202957	2	19.0	2	94	5	69	48	2	0	48	1.15
1204256--1204367	58	1.9	58	82	8	138	26	19	18	34	1.95
1204592--1204708	60	2.0	60	87	0	171	35	17	12	34	1.88
1204602--1204728	60	2.1	60	81	5	141	37	16	14	31	1.90
1208037--1208075	16	2.4	16	95	0	69	51	15	10	23	1.73
1208652--1208684	4	8.2	4	93	0	57	51	21	0	27	1.48
1208810--1208853	2	22.0	2	100	0	88	50	0	0	50	1.00
1218006--1218170	81	2.0	80	88	1	240	44	20	10	24	1.83
1222857--1222912	19	2.9	19	83	2	67	35	14	12	37	1.84
1224268--1224337	18	4.2	18	68	17	60	17	44	18	20	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1226897--1226962	12	5.6	12	75	8	55	15	10	18	56	1.67
1226856--1226964	24	4.5	24	76	2	94	19	13	17	49	1.79
1229846--1229899	20	2.6	21	79	5	56	59	1	3	35	1.26
1232246--1232277	3	10.7	3	100	0	64	65	0	0	34	0.93
1232403--1232446	19	2.3	19	92	0	70	29	13	0	56	1.38
1233947--1233991	24	1.9	24	86	13	67	42	0	0	57	0.98
1233946--1233991	25	1.9	25	86	8	69	41	0	0	58	0.98
1234980--1235051	3	24.0	3	100	0	144	66	0	0	33	0.92
1243194--1243262	22	3.3	22	76	19	92	50	4	2	42	1.37
1243836--1243902	6	11.2	6	80	6	82	34	22	0	43	1.54
1244030--1244123	23	4.1	23	77	0	107	35	29	20	14	1.93
1244281--1244348	15	4.5	15	71	20	52	32	22	11	33	1.90
1244272--1244357	45	1.9	45	87	0	127	32	20	10	36	1.87
1244595--1244669	23	3.3	23	84	0	105	37	25	18	18	1.94
1244594--1244693	46	2.2	46	83	3	121	35	24	22	19	1.96
1251250--1251309	29	2.1	29	100	0	120	31	21	26	20	1.98
1255025--1255085	21	2.9	21	76	9	70	31	19	18	31	1.96
1265406--1265453	2	24.0	2	82	0	51	52	0	4	43	1.20
1271112--1271178	30	2.2	29	82	10	73	43	0	4	52	1.21
1271333--1271395	23	2.7	23	92	0	99	38	20	4	36	1.74
1272117--1273284	198	5.9	199	95	1	2096	31	16	15	36	1.90
1273403--1273451	19	2.6	19	93	0	80	57	10	2	30	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1275353--1275400	21	2.3	21	81	0	60	16	31	14	37	1.89
1277635--1277682	20	2.5	20	83	16	73	20	16	12	50	1.78
1277803--1277848	20	2.3	20	85	10	67	19	17	8	54	1.68
1283076--1283167	35	2.6	34	81	10	105	41	23	13	21	1.88
1283223--1283326	35	2.9	35	86	2	127	46	21	11	21	1.82
1288258--1288408	78	1.9	78	91	0	248	49	12	5	32	1.63
1292696--1292721	6	4.3	6	100	0	52	30	50	19	0	1.48
1293466--1293536	37	1.9	36	83	8	90	23	11	36	28	1.89
1295822--1296018	100	2.0	100	98	0	385	39	12	22	25	1.89
1298304--1298424	20	6.1	20	89	3	190	19	16	14	49	1.79
1298304--1298441	40	3.4	40	90	5	215	21	15	14	48	1.81
1298305--1298451	60	2.5	60	88	2	215	20	16	16	46	1.83
1298426--1298511	20	4.3	19	86	5	109	16	13	25	44	1.85
1298426--1298532	40	2.7	40	81	11	139	17	14	24	42	1.87
1298523--1298576	20	2.7	20	85	0	72	24	11	35	29	1.90
1305709--1305777	33	2.1	34	83	8	88	46	26	1	26	1.61
1308842--1308937	29	3.2	29	71	11	86	32	14	15	37	1.88
1310651--1310682	2	16.0	2	100	0	64	50	0	0	50	1.00
1313311--1313420	42	2.6	42	90	4	161	19	16	15	49	1.80
1314926--1314952	4	6.8	4	100	0	54	22	0	25	51	1.48
1316255--1316323	15	4.6	15	79	0	66	10	33	21	34	1.87
1337987--1338014	2	14.0	2	100	0	56	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1347293--1347504	60	3.5	60	87	2	266	34	20	6	37	1.79
1350000--1350035	2	18.5	2	88	5	56	44	0	0	55	0.99
1350385--1350413	2	14.5	2	100	0	58	51	0	0	48	1.00
1352361--1352396	12	2.8	14	80	20	51	38	0	0	61	0.96
1358608--1358657	2	26.5	2	80	11	61	46	0	2	52	1.12
1358619--1358661	15	2.9	14	83	13	50	41	0	2	55	1.12
1367504--1367528	2	12.5	2	100	0	50	48	0	0	52	1.00
1378571--1378650	26	3.1	26	80	7	99	26	12	26	35	1.92
1379325--1379505	89	2.0	89	100	0	362	43	5	12	39	1.65
1380298--1380339	21	2.0	22	90	4	68	45	7	19	28	1.76
1393752--1393821	29	2.4	29	90	0	104	22	30	31	15	1.95
1394686--1394726	21	1.9	22	85	5	57	36	4	21	36	1.75
1394862--1394927	35	1.9	33	85	11	89	53	7	9	30	1.60
1400264--1400359	48	2.0	48	95	0	174	16	31	7	44	1.75
1400553--1400591	19	2.1	18	90	4	60	48	5	0	46	1.24
1401503--1401694	98	2.0	98	87	0	276	39	11	19	29	1.87
1406526--1406618	29	3.1	29	67	17	73	33	20	5	40	1.75
1406507--1406623	60	2.0	59	86	1	162	31	21	6	40	1.79
1406507--1406677	60	2.9	60	80	6	161	30	25	7	37	1.82
1414006--1414053	23	2.0	24	96	4	89	18	12	4	64	1.43
1417198--1417243	12	3.6	13	81	18	53	13	0	8	78	0.97
1417199--1417254	27	2.1	27	83	6	69	10	1	7	80	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1421143--1421321	95	1.9	95	88	2	270	33	19	17	29	1.95
1422704--1422857	36	4.2	36	89	2	209	32	16	10	40	1.83
1422797--1423201	65	6.1	65	71	17	287	28	19	11	40	1.86
1422705--1422990	36	8.2	34	76	14	205	30	18	10	40	1.84
1422733--1423172	133	3.3	134	91	2	666	27	19	11	40	1.86
1423053--1423120	33	2.1	32	91	2	109	23	19	13	44	1.85
1424990--1425025	12	2.9	12	88	8	54	16	0	5	77	0.94
1424990--1425087	8	11.5	8	72	16	63	14	5	5	75	1.15
1425020--1425072	27	1.9	28	85	11	74	13	7	3	75	1.15
1425999--1426177	95	1.9	95	88	2	270	33	19	17	29	1.95

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