genome.fa.s7905.2.7.7.80.10.50.1000.7.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: VEPZ01007905.1 Hibiscus syriacus cultivar Beakdansim tig00110299_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2946335

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

This is table  7  of  14  ( 1644 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)
1232346--1232410	21	3.1	21	82	4	96	47	15	26	10	1.78
1232452--1232508	14	3.7	14	75	20	60	8	24	22	43	1.81
1232436--1232515	33	2.4	33	95	0	142	8	21	22	47	1.78
1232496--1232569	21	3.5	21	80	7	96	14	20	17	47	1.83
1232649--1232719	33	2.2	33	94	0	124	47	16	23	11	1.79
1233099--1233291	20	9.6	20	82	5	219	19	18	26	35	1.94
1234122--1234168	24	2.0	24	95	0	85	34	8	2	55	1.42
1242495--1242544	20	2.5	20	86	0	64	44	18	10	28	1.81
1245747--1245781	15	2.3	15	95	0	61	28	25	2	42	1.69
1246688--1246748	25	2.4	26	89	5	99	27	13	16	42	1.85
1247418--1247490	35	2.1	35	84	0	92	26	20	21	31	1.98
1254999--1255042	3	15.3	3	86	9	65	65	0	31	2	1.05
1255053--1255118	33	2.0	33	90	0	105	45	13	18	22	1.84
1256707--1256855	29	5.2	29	72	8	97	36	4	14	44	1.63
1261682--1262105	211	2.0	211	97	0	794	34	15	13	36	1.86
1262195--1262230	11	3.4	11	88	3	56	19	5	2	72	1.17
1263530--1263575	3	15.3	3	100	0	92	67	0	0	32	0.91
1265017--1265066	26	1.9	26	100	0	100	28	10	16	46	1.78
1267558--1267628	6	11.8	6	100	0	142	32	33	0	33	1.58
1269322--1269365	20	2.2	20	83	0	52	40	25	11	22	1.87
1269431--1269573	68	2.1	68	98	1	277	36	13	11	38	1.81
1270185--1270242	18	3.2	19	90	7	93	1	60	0	37	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1275072--1275105	16	2.1	17	88	5	52	35	0	0	64	0.94
1279291--1279330	17	2.2	19	86	8	57	40	0	20	40	1.52
1279736--1279815	19	4.2	19	98	0	151	22	31	25	21	1.98
1281783--1281822	21	1.9	21	90	10	64	55	5	7	32	1.50
1282210--1282270	30	2.0	30	100	0	122	54	19	13	13	1.71
1285239--1285272	15	2.3	15	89	0	50	35	14	11	38	1.83
1285680--1285753	23	3.3	22	67	7	60	27	24	20	28	1.99
1288395--1288548	65	2.4	65	85	4	204	29	19	19	31	1.96
1292611--1292685	22	3.5	22	71	14	75	33	12	22	32	1.91
1292607--1292704	42	2.3	42	91	0	151	30	11	26	31	1.91
1293349--1293406	21	2.8	21	84	5	73	27	15	24	32	1.95
1293388--1293436	23	2.2	22	86	10	73	28	24	22	24	1.99
1293396--1293440	23	2.0	23	100	0	90	22	26	24	26	2.00
1299579--1299653	22	3.5	21	69	20	66	30	10	28	30	1.90
1299575--1299675	42	2.4	42	90	3	150	29	10	28	30	1.91
1300318--1300359	21	2.0	21	86	9	59	26	16	23	33	1.96
1300357--1300448	23	4.2	22	72	16	75	27	17	25	30	1.97
1301139--1301179	18	2.3	18	86	0	55	48	0	19	31	1.49
1301566--1301924	46	7.8	46	86	1	497	43	13	20	22	1.86
1301537--1301937	92	4.4	91	85	2	498	44	13	19	22	1.85
1312909--1312955	25	2.0	23	83	8	58	40	12	4	42	1.63
1314514--1314546	6	5.5	6	100	0	66	15	0	51	33	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1315375--1315422	21	2.2	23	81	7	55	41	6	10	41	1.64
1315437--1315529	31	3.2	29	70	23	79	68	5	0	25	1.10
1315482--1315514	17	2.0	17	94	5	59	87	0	0	12	0.53
1315482--1315514	8	4.0	8	92	7	57	87	0	0	12	0.53
1316400--1316425	12	2.2	12	100	0	52	30	0	7	61	1.24
1317652--1317700	3	17.0	3	82	4	57	30	2	0	67	1.02
1323651--1323717	32	2.1	32	85	0	89	31	22	7	38	1.82
1324464--1324614	14	10.4	14	70	19	73	75	0	17	6	1.01
1324465--1324625	27	5.6	28	73	18	120	75	0	18	6	1.01
1324526--1324573	18	2.7	17	87	6	60	72	0	22	4	1.01
1324491--1324616	40	3.0	42	78	14	129	75	0	19	5	0.99
1324563--1324610	13	3.6	13	88	5	69	79	0	16	4	0.89
1324954--1324999	20	2.3	19	85	14	58	50	8	15	26	1.73
1332725--1332756	3	10.7	3	93	0	55	68	0	28	3	1.04
1332724--1332765	12	3.5	12	90	0	66	69	0	23	7	1.13
1334601--1334651	20	2.5	20	87	6	68	27	33	11	27	1.92
1372514--1372960	222	2.0	221	95	1	806	35	18	15	30	1.92
1373107--1373164	26	2.2	26	96	0	107	8	36	13	41	1.76
1380001--1380207	103	2.0	103	92	0	342	32	13	28	25	1.93
1387893--1387941	23	2.1	23	85	7	64	26	2	14	57	1.48
1394480--1394504	7	3.6	7	100	0	50	60	0	0	40	0.97
1394506--1394534	5	5.8	5	100	0	58	17	0	0	82	0.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1398130--1398178	23	2.1	23	85	7	64	26	2	14	57	1.48
1398670--1398699	11	2.9	10	90	9	51	20	3	6	70	1.25
1401433--1401530	38	2.6	39	82	8	112	42	11	5	40	1.62
1401470--1401604	68	1.9	69	81	10	159	42	6	5	45	1.52
1401575--1401794	39	5.3	46	76	20	163	43	8	1	46	1.44
1401620--1401790	39	4.4	39	88	5	240	43	8	1	46	1.45
1407021--1407087	21	3.1	21	68	20	57	58	4	14	22	1.55
1413900--1413941	22	1.9	22	85	0	57	66	0	7	26	1.17
1415038--1415087	14	3.4	14	78	8	55	78	4	4	14	1.05
1415102--1415285	38	4.9	37	80	9	192	42	11	3	42	1.57
1420992--1421089	19	5.2	19	65	18	69	41	6	8	43	1.59
1420992--1421089	38	2.6	38	98	0	187	41	6	8	43	1.59
1421620--1421682	10	5.6	11	75	17	51	25	34	28	11	1.90
1421655--1421686	14	2.3	14	100	0	64	21	43	28	6	1.77
1421755--1421868	29	3.9	29	89	0	165	22	27	34	15	1.95
1423032--1423085	27	2.0	27	92	0	90	31	18	29	20	1.96
1424299--1424328	15	2.0	15	100	0	60	60	0	20	20	1.37
1424302--1424336	15	2.3	15	90	0	52	65	0	17	17	1.27
1424330--1424522	5	38.6	5	69	19	57	73	1	6	19	1.12
1424446--1424544	19	6.0	16	72	22	55	72	0	3	24	0.98
1424428--1424521	26	3.7	26	71	17	72	76	0	5	18	0.97
1424416--1424521	49	2.2	48	81	13	119	76	0	4	18	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1424416--1424524	9	11.6	9	69	14	60	77	0	4	18	0.94
1424416--1424533	27	4.5	26	74	19	86	75	0	5	19	0.99
1424470--1424603	35	3.5	37	76	16	114	67	1	2	28	1.11
1424466--1424587	37	3.2	39	77	20	116	66	0	2	30	1.10
1424594--1424661	23	2.9	23	76	24	63	69	4	5	20	1.28
1424986--1425054	34	2.0	34	94	0	120	31	14	11	42	1.82
1425650--1425841	98	2.0	98	87	0	276	19	21	25	34	1.96
1426518--1426685	68	2.5	66	84	3	221	38	8	22	30	1.85
1426602--1426896	101	2.9	101	83	7	326	40	13	20	26	1.89
1426751--1426894	36	4.0	36	92	0	252	39	13	20	25	1.90
1427374--1427409	18	2.0	18	88	0	54	41	30	8	19	1.81
1427826--1427880	22	2.5	22	100	0	110	23	12	27	36	1.91
1428501--1428581	22	3.7	22	73	15	69	1	13	7	77	1.03
1428553--1428603	15	3.2	16	79	17	54	0	13	7	78	0.96
1431574--1431603	15	2.0	15	100	0	60	60	0	20	20	1.37
1431577--1431611	15	2.3	15	90	0	52	65	0	17	17	1.27
1431708--1431733	9	2.9	9	100	0	52	80	0	19	0	0.71
1431740--1431842	41	2.6	39	80	13	97	70	0	1	26	1.03
1431740--1431825	30	2.8	30	81	10	95	72	1	2	24	1.04
1431776--1431892	44	3.0	35	73	24	101	65	1	1	30	1.12
1431883--1431957	24	3.5	21	77	16	59	70	4	5	20	1.23
1431883--1431950	23	2.9	23	76	24	63	69	4	5	20	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1432265--1432333	34	2.0	34	97	0	129	33	13	11	42	1.80
1432663--1432937	48	5.6	48	83	8	358	35	2	15	45	1.61
1432663--1432940	95	2.9	94	89	4	376	35	2	15	46	1.61
1436886--1436946	23	2.7	23	87	5	88	29	27	24	18	1.98
1443710--1443763	23	2.3	23	83	0	72	31	25	24	18	1.97
1447280--1447325	20	2.3	20	100	0	92	32	15	19	32	1.93
1450499--1450531	17	1.9	17	93	0	57	48	6	3	42	1.43
1452823--1452867	2	23.0	2	95	4	83	51	0	0	48	1.00
1455098--1455144	16	2.8	16	87	6	58	46	2	2	48	1.25
1466649--1466684	5	6.8	5	90	9	54	38	0	0	61	0.96

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