genome.fa.s8727.2.7.7.80.10.50.1000.7.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: VEPZ01008727.1 Hibiscus syriacus cultivar Beakdansim tig00111794_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1388410

Tables:   1   2   3   4   5   6   7   8   

This is table  7  of  8  ( 846 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)
1179947--1180042	37	2.6	37	81	3	113	42	16	10	30	1.82
1180722--1180777	22	2.5	22	80	13	69	30	3	0	66	1.09
1180722--1180800	23	3.4	21	77	16	59	29	3	0	67	1.08
1180743--1180812	23	3.1	21	76	21	63	25	2	0	71	1.00
1180700--1180808	24	4.6	23	75	13	80	31	3	0	64	1.17
1180722--1180812	45	2.0	44	81	10	105	28	4	0	67	1.10
1180753--1180810	28	2.1	27	81	9	64	27	3	0	68	1.05
1181879--1182386	57	8.9	57	89	1	770	35	18	10	35	1.85
1182709--1182778	19	3.5	19	73	17	61	30	20	15	34	1.93
1188726--1189173	57	7.9	57	91	1	711	35	18	9	35	1.84
1190498--1190685	32	5.9	32	80	1	153	31	18	14	36	1.90
1190562--1190703	32	4.5	31	77	10	135	31	18	13	36	1.89
1190595--1190725	64	2.0	64	82	8	160	32	19	13	34	1.91
1203216--1203424	107	2.0	107	92	0	346	48	10	7	33	1.65
1205112--1205156	19	2.4	19	88	0	63	62	11	4	22	1.46
1209788--1209830	21	2.1	21	87	8	63	65	2	2	30	1.18
1214100--1214152	6	8.8	6	97	0	88	0	11	67	20	1.21
1215519--1215620	30	3.4	30	83	0	132	16	15	10	56	1.66
1215486--1215662	60	3.0	60	76	6	166	16	13	11	58	1.63
1219993--1220405	207	2.0	207	89	0	637	33	16	19	30	1.94
1221630--1221722	31	3.0	29	67	13	78	33	10	13	41	1.80
1221612--1221830	63	3.4	64	84	10	213	33	11	14	40	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1221616--1221830	62	3.4	64	82	11	214	34	11	14	40	1.81
1221804--1221837	15	2.4	15	90	9	54	23	8	11	55	1.63
1221959--1222317	130	2.8	128	81	8	392	28	31	14	25	1.95
1222638--1222675	20	1.9	20	89	10	60	34	0	0	65	0.93
1224083--1224222	30	4.8	30	71	7	117	17	12	10	58	1.62
1225476--1225517	22	1.9	22	90	9	68	11	33	0	54	1.37
1226422--1226461	21	1.9	21	89	0	62	37	7	12	42	1.71
1226463--1226504	22	1.9	22	95	0	75	38	9	14	38	1.78
1229499--1229548	21	2.4	21	86	0	64	40	12	18	30	1.86
1230162--1230516	181	2.0	180	96	3	662	23	16	19	41	1.90
1231138--1231165	14	2.0	14	100	0	56	50	14	7	28	1.69
1236300--1236372	35	2.1	35	94	0	128	27	15	28	28	1.96
1241736--1241786	24	2.1	24	82	13	61	35	9	17	37	1.83
1242637--1242667	16	1.9	16	93	0	53	58	6	3	32	1.40
1243785--1243842	30	1.9	30	82	6	73	68	0	8	22	1.16
1243776--1243886	41	2.8	41	77	15	108	69	0	6	23	1.17
1243794--1243880	34	2.5	35	81	9	97	66	1	6	25	1.23
1245221--1245482	36	7.4	36	84	12	337	43	6	3	46	1.47
1245221--1245482	106	2.5	105	86	9	354	43	6	3	46	1.47
1245429--1245493	25	2.4	28	78	19	75	46	4	1	47	1.32
1245431--1245502	27	2.6	28	80	17	87	45	4	1	48	1.30
1250743--1253199	57	43.6	58	84	6	3187	40	14	8	36	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1250743--1253199	112	21.8	115	85	6	3071	40	14	8	36	1.76
1253348--1253461	44	2.6	44	83	8	137	38	16	9	35	1.82
1255740--1255777	2	19.0	2	100	0	76	50	0	0	50	1.00
1255788--1255826	19	2.1	19	95	0	69	28	12	15	43	1.83
1266242--1266287	12	3.6	12	81	16	56	45	17	19	17	1.85
1266248--1266288	12	3.1	13	80	19	57	46	14	17	21	1.84
1268590--1268631	21	2.0	21	90	0	66	30	11	7	50	1.66
1268620--1268728	33	3.4	33	91	3	170	31	8	14	45	1.74
1268770--1268822	15	3.4	15	70	10	52	35	7	11	45	1.69
1270577--1270603	14	1.9	14	100	0	54	44	0	7	48	1.31
1275104--1275146	16	2.7	16	88	0	68	30	6	32	30	1.84
1275141--1275469	119	2.6	125	80	8	361	44	15	16	23	1.85
1275356--1275388	5	6.8	5	93	6	59	81	0	0	18	0.68
1275357--1275387	9	3.3	9	95	4	53	80	0	0	19	0.71
1275356--1275388	14	2.3	15	94	5	59	81	0	0	18	0.68
1275236--1275487	131	1.9	129	85	4	346	48	13	15	23	1.80
1275507--1275562	29	1.9	29	100	0	112	51	3	14	30	1.59
1275510--1275573	29	2.2	29	88	5	94	56	3	10	29	1.49
1276666--1277312	139	4.7	139	81	3	669	24	16	27	31	1.96
1276666--1277266	277	2.2	278	83	1	747	25	15	27	31	1.96
1277657--1278015	154	2.3	152	79	8	415	41	11	16	30	1.83
1279698--1279764	27	2.5	27	90	2	100	59	1	5	32	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1280634--1280714	24	3.2	26	77	15	80	3	16	3	76	1.07
1280674--1280719	16	3.1	15	77	20	51	2	13	6	78	1.04
1280631--1280708	25	3.2	24	77	17	72	3	14	3	78	1.04
1284595--1284643	16	3.1	16	81	0	62	32	6	30	30	1.82
1284632--1284963	121	2.6	122	80	8	333	46	15	15	22	1.83
1284841--1284882	5	8.8	5	89	10	70	80	0	0	19	0.70
1284842--1284881	9	4.3	9	82	17	55	80	0	0	20	0.72
1284829--1284882	14	3.9	14	92	2	83	77	0	0	22	0.76
1284720--1284990	139	2.0	138	83	5	341	51	11	14	22	1.74
1285006--1285060	28	1.9	29	96	3	103	50	3	14	30	1.60
1287371--1287426	27	2.0	27	82	10	67	17	26	0	55	1.43
1291619--1291676	23	2.5	23	88	0	89	27	46	17	8	1.77
1294591--1294644	22	2.6	20	83	11	81	25	7	7	59	1.51
1295032--1295060	14	2.1	14	93	6	51	17	0	0	82	0.66
1295034--1295067	17	1.9	17	88	5	50	20	0	0	79	0.73
1297615--1297656	20	2.1	20	95	0	75	28	19	38	14	1.90
1298006--1298037	17	1.9	16	93	6	55	84	3	12	0	0.74
1299056--1299126	32	2.2	32	87	2	99	28	16	22	32	1.96
1299737--1299859	43	2.9	43	83	2	149	29	27	20	22	1.98
1300097--1300676	84	6.9	84	82	2	653	30	23	19	26	1.98
1299922--1300676	168	4.5	168	80	4	848	31	23	19	25	1.98
1299922--1300711	252	3.2	250	89	2	1128	31	23	19	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1302040--1302093	22	2.6	20	83	11	81	25	7	7	59	1.51
1302484--1302523	17	2.4	17	87	8	55	17	2	0	80	0.83
1303822--1303856	9	3.8	9	88	3	52	77	0	0	22	0.78
1303917--1303949	4	8.2	4	93	0	57	72	0	3	24	0.98
1305072--1305432	171	2.1	171	86	0	497	28	19	21	29	1.98
1305441--1306565	84	13.4	84	88	2	1483	23	20	26	30	1.98
1307694--1307950	94	2.7	95	86	4	331	32	15	18	33	1.93
1310551--1310693	9	15.9	9	66	19	50	70	0	6	22	1.11
1310552--1310650	17	5.5	19	66	21	61	73	0	7	19	1.05
1310555--1310620	11	5.9	11	77	16	57	69	0	6	24	1.10
1310564--1310620	23	2.5	23	76	18	57	68	0	7	24	1.14
1313618--1313658	6	6.8	6	100	0	82	17	48	0	34	1.47
1313788--1313828	18	2.3	19	84	12	52	26	0	7	65	1.18
1327377--1327433	23	2.6	21	73	10	60	33	17	14	35	1.90
1328086--1328112	4	6.8	4	100	0	54	74	0	0	25	0.83
1335785--1335829	6	7.5	6	100	0	90	0	66	0	33	0.92
1338407--1338590	87	2.1	88	83	3	228	30	20	21	27	1.98
1338458--1338815	132	2.7	131	86	2	477	32	20	20	27	1.97
1338612--1338712	44	2.3	44	81	3	114	25	23	19	30	1.98
1339367--1339594	36	6.5	36	78	8	218	39	15	18	26	1.90
1339225--1339494	66	4.1	67	82	4	296	38	14	18	29	1.89
1339225--1339494	133	2.0	133	81	4	312	38	14	18	29	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1339666--1339799	21	6.4	21	73	4	119	32	20	17	29	1.96
1339690--1339799	41	2.7	41	92	1	184	30	20	20	29	1.98
1339711--1339778	20	3.3	20	71	4	73	29	20	22	27	1.98
1339685--1339825	41	3.4	41	85	4	167	32	21	17	27	1.96
1339976--1340089	42	2.7	40	75	14	95	29	20	19	30	1.97
1340128--1340287	42	3.8	42	79	8	189	25	31	16	26	1.97
1340123--1340294	85	2.0	85	86	4	240	25	30	16	27	1.97
1351825--1351866	20	2.1	20	100	0	84	40	14	4	40	1.67
1352147--1352173	7	3.9	7	100	0	54	74	0	0	25	0.83
1356013--1356043	16	1.9	16	93	0	53	51	12	0	35	1.40

Tables:   1   2   3   4   5   6   7   8