genome.fa.s5546.2.7.7.80.10.50.1000.6.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: VEPZ01005546.1 Hibiscus syriacus cultivar Beakdansim tig00012840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1755203

Tables:   1   2   3   4   5   6   7   8   

This is table  6  of  8  ( 904 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)
1155751--1155852	50	2.0	51	86	1	143	33	24	23	18	1.97
1161744--1161791	23	2.1	23	84	0	60	39	39	0	20	1.53
1164654--1164701	25	1.9	25	83	8	62	62	2	10	25	1.38
1165989--1166051	4	14.8	4	83	9	56	71	0	3	25	1.01
1165989--1166037	13	3.7	13	84	13	64	75	0	0	24	0.80
1166009--1166038	5	6.2	5	92	7	53	80	0	0	20	0.72
1166064--1166465	36	10.9	37	74	13	226	47	7	3	41	1.48
1166087--1166275	37	4.9	39	76	16	146	48	6	3	41	1.44
1166064--1166465	38	10.9	37	74	13	217	47	7	3	41	1.48
1166143--1166426	34	7.8	34	73	14	146	48	7	3	40	1.48
1167135--1167865	84	8.7	84	80	4	830	25	19	25	30	1.98
1167133--1167865	252	2.9	252	90	1	1112	24	18	25	30	1.98
1172884--1172931	25	1.9	25	83	8	62	62	2	10	25	1.38
1174251--1174567	37	8.8	36	76	13	208	48	8	2	39	1.48
1174270--1174640	34	10.2	36	76	13	184	47	8	3	40	1.50
1174327--1174451	38	3.0	42	84	12	163	51	6	0	42	1.27
1174296--1174451	78	2.0	82	86	7	223	50	6	1	41	1.36
1174805--1174831	2	13.5	2	100	0	54	51	0	0	48	1.00
1179879--1179994	53	2.2	53	85	3	162	38	17	18	25	1.92
1180766--1180815	23	2.3	22	80	12	59	22	6	12	60	1.53
1188947--1188993	24	2.0	24	100	0	94	42	10	12	34	1.78
1189533--1189592	31	2.0	31	83	3	77	38	26	3	31	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1199916--1199953	15	2.5	15	100	0	76	26	23	13	36	1.91
1200392--1200434	2	22.0	2	95	4	79	51	0	0	48	1.00
1202336--1202362	2	13.5	2	100	0	54	51	0	0	48	1.00
1205605--1205683	23	3.4	23	91	0	131	25	16	18	39	1.91
1221125--1221173	24	2.0	24	84	7	64	46	2	2	48	1.25
1225302--1225337	15	2.4	15	100	0	72	19	22	19	38	1.93
1225456--1225569	36	3.2	35	70	7	95	29	20	10	39	1.86
1225441--1225578	71	1.9	72	86	1	197	32	21	11	34	1.89
1225937--1226407	113	4.1	116	79	7	446	38	12	20	28	1.89
1230585--1230662	25	2.9	27	77	12	81	26	19	23	30	1.98
1240139--1240358	75	2.9	75	83	0	260	50	20	5	23	1.70
1240303--1240397	39	2.4	40	85	1	129	56	18	1	23	1.48
1242259--1242494	63	3.7	62	75	14	203	40	7	6	45	1.57
1247850--1248114	65	4.0	67	76	12	267	40	6	6	46	1.55
1247964--1248021	30	2.0	29	82	3	71	46	3	5	44	1.42
1256244--1256307	21	3.3	21	62	20	57	26	10	21	40	1.86
1260956--1261026	37	1.9	37	88	0	106	25	8	21	45	1.80
1265324--1265382	31	1.9	31	92	0	100	40	6	10	42	1.65
1265407--1265449	22	2.0	22	100	0	86	51	13	0	34	1.42
1265409--1265457	22	2.2	22	88	3	71	55	14	0	30	1.40
1265397--1266077	54	12.4	54	80	11	735	52	12	0	34	1.41
1265429--1266025	32	21.4	32	69	27	438	52	12	0	34	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1265531--1265584	14	3.6	14	72	18	54	57	5	0	37	1.22
1265397--1266077	166	4.1	166	86	8	898	52	12	0	34	1.41
1265573--1265615	22	2.0	22	100	0	86	51	13	0	34	1.42
1265575--1265623	22	2.2	22	88	3	71	55	14	0	30	1.40
1265679--1265736	18	3.4	18	70	18	61	56	13	0	29	1.38
1265631--1265704	22	3.2	22	70	16	60	55	17	0	27	1.42
1265741--1265789	22	2.2	22	85	3	62	55	12	2	30	1.48
1265795--1265843	22	2.2	22	85	3	62	55	12	2	30	1.48
1265960--1266062	22	4.5	22	72	7	98	51	9	0	38	1.35
1265951--1266146	69	2.9	67	86	6	218	52	5	0	42	1.23
1266005--1266146	15	9.5	15	78	19	154	52	2	0	45	1.12
1265979--1266146	54	3.3	52	85	5	202	51	4	0	44	1.20
1266020--1266182	69	2.4	68	85	7	201	50	3	0	46	1.17
1272666--1272735	27	2.6	26	88	4	95	17	2	31	48	1.61
1274577--1274632	29	1.9	29	85	0	76	23	17	12	46	1.82
1274604--1274772	81	2.1	81	86	0	230	27	24	11	36	1.90
1274911--1275475	55	10.3	55	85	3	635	27	19	19	33	1.96
1275368--1275470	54	1.9	54	93	0	179	30	20	21	28	1.98
1275887--1275944	22	2.8	20	85	10	80	27	25	15	31	1.96
1275819--1276015	93	2.1	94	86	2	272	25	23	15	35	1.95
1275854--1276036	93	2.0	93	84	5	230	25	21	16	35	1.95
1285057--1285101	5	8.6	5	80	9	54	22	2	2	73	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1290540--1290619	39	2.1	38	90	4	108	37	23	20	18	1.94
1305963--1306018	23	2.5	22	83	13	71	33	19	25	21	1.97
1306040--1306091	20	2.6	20	84	0	68	17	19	26	36	1.94
1306955--1308060	367	3.0	367	91	2	1731	35	12	13	38	1.83
1309944--1309976	16	2.1	16	94	0	57	39	6	39	15	1.72
1314226--1314298	26	2.8	26	87	0	110	20	20	28	30	1.98
1317577--1317615	17	2.3	17	83	12	53	53	0	17	28	1.44
1317577--1317615	18	2.3	18	86	8	55	53	0	17	28	1.44
1353378--1353479	30	3.4	30	95	2	188	32	24	18	24	1.97
1353378--1353506	30	4.3	30	89	3	116	34	24	17	23	1.96
1354559--1354635	20	3.7	20	79	14	75	24	24	24	25	2.00
1354605--1354726	63	1.9	64	81	5	149	25	22	18	32	1.97
1357975--1358013	21	1.9	20	84	5	51	66	0	12	20	1.24
1358455--1358505	20	2.7	18	82	14	50	52	0	7	39	1.30
1358984--1359453	222	2.1	225	92	4	783	44	8	8	38	1.65
1359524--1359991	180	2.6	180	87	4	642	42	14	16	26	1.87
1360191--1360293	46	2.2	46	98	0	197	19	13	25	41	1.88
1362111--1362154	21	2.1	21	91	0	70	40	11	31	15	1.83
1362188--1362253	33	2.0	33	87	0	96	30	0	46	22	1.52
1364041--1364089	19	2.6	19	93	0	80	30	2	10	57	1.43
1364208--1364973	196	3.9	197	96	1	1414	36	15	17	30	1.91
1364208--1364973	394	1.9	394	96	1	1430	36	15	17	30	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1366439--1366530	6	15.3	6	81	0	76	38	7	33	20	1.81
1366442--1366518	36	2.1	36	92	0	127	36	9	33	20	1.85
1366454--1366534	9	9.0	9	77	0	81	37	6	33	23	1.80
1366442--1366530	12	7.4	12	87	0	97	37	7	33	21	1.82
1367728--1367761	16	2.1	16	88	0	50	47	8	20	23	1.78
1368123--1368186	23	2.8	23	87	0	92	37	3	21	37	1.70
1368490--1368534	22	2.0	22	83	8	56	42	11	8	37	1.72
1368560--1368624	23	2.8	23	85	0	85	35	4	20	40	1.73
1368552--1368629	23	3.5	22	79	10	70	35	3	20	39	1.71
1367920--1369830	431	4.4	431	98	0	3616	40	7	11	39	1.71
1368983--1369055	23	3.2	23	88	0	101	34	4	21	39	1.73
1369414--1369486	23	3.2	23	88	0	101	34	4	21	39	1.73
1369867--1370359	183	2.7	182	96	1	905	34	15	17	33	1.91
1372826--1372889	24	2.6	25	80	5	85	35	9	14	40	1.78
1373241--1373313	23	3.2	23	88	0	101	34	4	21	39	1.73
1373585--1373633	25	2.0	25	92	4	82	26	8	20	44	1.79
1374019--1374055	18	2.1	18	89	0	56	32	5	10	51	1.60
1374011--1374057	24	2.0	24	86	0	67	34	4	14	46	1.64
1374253--1374319	35	1.9	35	87	0	98	40	25	11	22	1.88
1374325--1374411	39	2.2	39	93	0	147	48	19	14	17	1.81
1374831--1374891	23	2.7	23	92	0	95	36	4	21	37	1.75
1374831--1374903	23	3.2	23	82	7	85	34	5	21	38	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1375262--1375325	23	2.8	23	90	0	101	37	4	21	35	1.75
1375688--1375760	23	3.2	23	88	0	101	34	4	21	39	1.73
1376119--1376191	23	3.2	23	92	0	110	34	4	23	38	1.74
1374629--1376543	431	4.5	430	96	1	3525	40	7	12	38	1.72
1377084--1377125	22	1.9	22	100	0	84	26	28	30	14	1.95
1379397--1379439	15	2.9	14	86	3	59	0	23	6	69	1.12
1379831--1379921	16	5.8	16	78	11	80	58	2	0	39	1.10
1379831--1379921	3	30.7	3	78	10	80	58	2	0	39	1.10
1379831--1379922	31	2.9	30	78	10	96	57	2	0	40	1.11
1380093--1380547	55	8.4	55	89	4	613	19	28	19	32	1.96

Tables:   1   2   3   4   5   6   7   8