genome.fa.s7952.2.7.7.80.10.50.1000.7.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: VEPZ01007952.1 Hibiscus syriacus cultivar Beakdansim tig00110377_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3169409

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  7  of  16  ( 1872 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)
1160387--1160584	75	2.6	75	81	9	210	52	13	5	29	1.62
1160504--1160532	12	2.5	12	94	5	51	62	10	0	27	1.28
1160804--1160847	21	2.1	21	91	8	72	27	29	6	36	1.83
1167728--1167855	51	2.5	51	85	2	168	17	32	28	21	1.96
1168115--1168335	110	2.0	111	95	0	399	35	8	10	45	1.69
1169642--1169714	25	3.0	24	68	24	62	26	6	4	63	1.38
1173341--1173469	51	2.5	51	84	2	161	18	30	33	17	1.95
1173481--1173556	29	2.6	29	85	2	89	31	13	27	27	1.94
1174958--1175063	31	3.4	31	90	2	169	22	11	14	51	1.73
1178534--1178730	97	2.0	97	98	0	376	47	17	9	25	1.77
1181630--1181686	13	4.5	13	73	8	55	24	15	0	59	1.36
1181739--1181795	19	3.0	19	92	0	78	35	17	1	45	1.59
1181739--1181814	38	2.0	38	82	5	91	34	17	2	46	1.62
1181760--1181823	19	3.3	20	87	8	89	34	14	4	46	1.65
1187517--1187555	21	1.9	20	94	5	69	58	0	0	41	0.98
1192666--1192713	20	2.4	20	96	0	87	52	25	8	14	1.69
1197208--1197268	24	2.5	26	76	17	67	29	1	4	63	1.24
1197859--1197916	30	1.9	30	83	13	75	65	6	1	25	1.27
1198021--1198069	24	2.0	25	84	4	64	67	4	12	16	1.37
1198361--1198420	29	2.1	29	84	6	77	41	20	6	31	1.78
1200900--1201210	155	2.0	156	99	0	615	23	32	18	26	1.97
1202838--1202873	18	2.0	18	100	0	72	22	11	22	44	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1204412--1204448	18	2.1	18	94	0	65	29	10	27	32	1.90
1205349--1205409	26	2.5	24	86	7	88	52	0	36	11	1.38
1206648--1206726	3	26.7	3	84	7	90	39	0	0	60	0.97
1208325--1208366	20	2.2	19	86	4	57	33	0	2	64	1.07
1208223--1208457	120	2.0	117	82	5	285	37	7	7	47	1.60
1211281--1211362	36	2.3	36	97	0	155	43	15	24	15	1.86
1212304--1212335	15	2.1	15	94	0	55	25	18	9	46	1.79
1219500--1219583	8	9.7	9	77	13	70	82	0	17	0	0.68
1219494--1219580	22	3.8	22	92	4	129	82	0	17	0	0.66
1219492--1219579	14	6.5	14	75	17	64	81	0	18	0	0.68
1219494--1219567	22	3.3	22	96	1	130	82	0	17	0	0.67
1221363--1221410	3	16.0	3	95	0	87	33	2	0	64	1.05
1221501--1221711	114	1.9	112	81	5	255	35	8	8	47	1.64
1221711--1221758	2	25.5	2	83	12	66	52	0	0	47	1.00
1223345--1223452	40	2.7	41	79	1	137	35	14	13	36	1.86
1224073--1224107	17	2.1	17	94	0	61	31	5	20	42	1.75
1227421--1227465	23	2.0	23	81	0	54	26	26	20	26	1.99
1236981--1237015	17	2.1	17	94	0	61	42	20	5	31	1.75
1237480--1237549	27	2.6	27	100	0	140	42	17	17	22	1.88
1240107--1240154	19	2.6	18	87	12	71	27	18	25	29	1.98
1240058--1240216	63	2.5	62	79	6	169	32	20	21	25	1.98
1240561--1240892	59	5.7	59	73	9	227	36	10	22	30	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1240561--1240820	117	2.2	117	86	1	360	36	11	21	30	1.88
1246683--1246730	19	2.6	18	81	12	62	27	18	27	27	1.98
1247135--1247287	58	2.6	60	77	10	163	35	9	23	30	1.87
1248926--1249019	29	3.2	29	80	6	100	50	14	2	32	1.56
1248948--1249117	29	5.9	29	80	8	168	44	18	4	32	1.70
1248948--1249117	59	2.9	56	82	6	189	44	18	4	32	1.70
1248949--1249117	88	1.9	87	85	5	234	44	18	4	31	1.70
1256497--1256695	58	3.4	57	86	6	215	42	16	4	36	1.69
1256475--1256695	87	2.5	86	80	9	216	43	16	4	35	1.67
1256482--1256696	29	7.4	29	80	7	195	42	17	4	35	1.68
1264506--1264534	2	14.5	2	100	0	58	48	0	0	51	1.00
1265419--1265455	8	4.6	8	93	0	65	0	35	0	64	0.94
1269794--1269831	19	1.9	19	89	5	58	76	0	7	15	1.01
1271123--1271280	79	2.0	81	86	2	221	24	18	25	32	1.97
1271277--1271396	34	3.6	34	95	3	208	29	9	20	40	1.83
1271382--1271737	36	10.1	36	76	12	339	40	14	19	25	1.89
1271449--1271737	73	4.1	73	78	12	323	41	14	19	24	1.89
1271488--1271737	138	1.8	138	91	1	412	41	14	19	24	1.89
1271643--1271707	21	3.4	21	68	24	70	43	12	21	23	1.86
1271634--1271762	36	3.6	34	87	7	134	40	14	20	24	1.90
1271391--1271732	174	1.9	177	92	2	584	41	14	19	23	1.89
1273293--1273519	95	2.6	86	82	13	282	30	19	20	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1273341--1273536	95	2.1	94	92	1	329	31	17	18	32	1.95
1274138--1274189	23	2.3	23	89	0	77	30	34	13	21	1.92
1277576--1277624	19	2.5	20	80	6	57	61	6	0	32	1.21
1281944--1281968	13	1.9	13	100	0	50	72	0	4	24	1.02
1291153--1291191	15	2.4	17	87	8	55	28	0	0	71	0.86
1292943--1292978	18	2.0	18	94	0	63	41	11	11	36	1.76
1298450--1298487	18	2.1	18	95	0	67	42	10	10	36	1.74
1301051--1301101	25	2.1	25	85	3	68	37	15	1	45	1.58
1301161--1301315	76	2.0	76	97	0	292	41	14	18	25	1.89
1302946--1302990	23	1.9	24	86	13	67	42	0	4	53	1.21
1302970--1303016	23	2.0	24	87	8	69	48	2	2	46	1.25
1326317--1326347	16	1.9	16	100	0	62	58	22	12	6	1.58
1326736--1326785	24	2.0	26	88	7	77	56	16	12	16	1.68
1328778--1328819	14	2.9	15	75	10	52	42	7	16	33	1.75
1328827--1328861	14	2.5	14	90	0	52	34	14	20	31	1.92
1328954--1329001	18	2.8	16	73	14	51	54	0	0	45	0.99
1328954--1329008	19	3.1	17	77	10	58	56	1	0	41	1.10
1329045--1329117	30	2.6	28	81	12	87	39	1	1	57	1.16
1329196--1329248	20	2.7	20	75	16	56	49	1	0	49	1.12
1329204--1329293	28	3.3	27	76	21	80	51	3	0	45	1.18
1329290--1329336	18	2.7	18	83	3	51	38	0	2	59	1.09
1329565--1329684	42	2.9	42	92	2	197	45	17	18	18	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1330686--1330717	5	6.2	5	92	7	55	25	56	18	0	1.42
1332955--1333006	25	2.1	25	92	0	86	26	15	25	32	1.95
1341211--1341257	3	16.0	3	91	4	60	25	0	6	68	1.13
1343617--1343650	17	2.0	17	94	0	59	35	11	2	50	1.54
1346286--1346439	31	5.0	31	90	3	247	24	19	19	36	1.95
1349186--1349234	17	3.1	15	81	16	55	77	4	16	2	1.01
1349168--1349236	15	4.4	15	79	16	70	78	4	14	2	1.03
1351875--1352115	102	2.4	99	78	10	231	31	18	13	36	1.89
1352096--1352800	67	10.6	67	86	2	900	29	18	13	38	1.89
1352310--1352422	30	3.6	30	67	17	84	29	15	14	40	1.87
1352821--1353393	139	4.1	139	83	3	627	30	27	15	26	1.96
1353634--1353665	3	10.7	3	93	0	55	28	0	3	68	1.04
1355274--1355316	2	21.5	2	100	0	86	48	0	0	51	1.00
1357719--1357764	6	7.7	6	92	0	65	30	47	17	4	1.67
1357766--1357818	5	10.6	5	78	8	54	18	33	39	7	1.79
1366402--1366491	40	2.3	39	88	1	126	27	11	32	28	1.91
1366402--1366508	40	2.7	40	84	5	101	28	10	32	28	1.90
1366367--1366549	90	2.0	90	79	2	197	32	9	30	28	1.88
1369931--1370075	50	2.9	50	88	0	209	31	8	30	30	1.87
1377281--1377315	16	2.2	16	94	0	61	60	14	8	17	1.58
1390717--1390780	30	2.1	30	82	0	74	17	6	40	35	1.75
1398597--1398665	20	3.2	20	77	18	75	33	23	10	33	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1398592--1398678	25	3.7	25	79	14	103	33	25	11	29	1.91
1398627--1398672	20	2.3	20	96	0	83	36	26	8	28	1.86
1408353--1408386	16	2.1	16	89	10	52	35	2	0	61	1.11
1411913--1411942	5	6.0	5	92	0	51	43	0	0	56	0.99
1415060--1415098	7	5.9	7	87	6	55	10	15	0	74	1.07
1415062--1415116	19	2.8	19	91	2	83	9	18	0	72	1.10
1415060--1415116	7	8.8	6	80	7	51	8	19	0	71	1.11
1415052--1415116	26	2.4	27	82	10	80	9	21	0	69	1.16
1416658--1416702	21	2.1	21	87	0	63	31	28	24	15	1.96
1418035--1418162	31	4.1	31	77	13	136	27	18	20	33	1.96

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16