genome.fa.s8199.2.7.7.80.10.50.1000.6.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: VEPZ01008199.1 Hibiscus syriacus cultivar Beakdansim tig00110819_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2638622

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

This is table  6  of  11  ( 1254 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)
1231760--1231798	20	1.9	21	89	5	62	46	5	2	46	1.38
1243214--1243269	29	2.0	29	86	10	80	64	3	3	28	1.27
1243857--1243992	66	2.1	66	100	0	272	29	14	19	36	1.91
1244640--1244679	20	2.0	20	95	0	71	37	0	12	50	1.41
1245896--1246582	112	6.1	112	93	1	1101	45	13	14	25	1.82
1246452--1246901	181	2.5	182	90	2	706	44	12	14	28	1.82
1257292--1257332	20	2.0	20	85	9	55	53	2	12	31	1.51
1269150--1269174	12	2.1	12	100	0	50	48	12	0	40	1.40
1269305--1269378	34	2.1	34	97	2	139	40	25	12	21	1.88
1270258--1270291	12	2.8	12	100	0	68	50	0	44	5	1.26
1285158--1285228	35	2.0	35	97	0	133	49	22	8	19	1.75
1296476--1296603	29	4.4	29	81	1	112	25	7	20	47	1.75
1299077--1299185	24	4.5	24	73	8	87	20	14	15	49	1.79
1301189--1301254	29	2.3	29	97	0	123	24	6	19	50	1.70
1301189--1301281	29	3.2	29	89	4	107	23	6	20	49	1.72
1303753--1303861	24	4.5	24	73	4	94	20	14	16	48	1.81
1305261--1305333	15	4.7	15	73	15	58	39	0	0	60	0.97
1305225--1305331	34	3.1	33	79	14	94	35	0	2	61	1.10
1305258--1305336	34	2.4	33	87	8	108	39	0	0	60	0.97
1305478--1305531	17	3.2	17	72	0	54	31	0	3	64	1.11
1307059--1307106	21	2.3	21	85	0	60	25	39	12	22	1.89
1307112--1307203	21	4.4	21	90	5	116	19	33	26	20	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1307726--1307822	33	2.9	34	84	3	133	54	4	3	38	1.35
1307724--1307829	34	3.2	33	81	8	133	53	4	2	38	1.36
1308214--1308569	128	2.8	128	96	0	667	32	19	25	23	1.97
1309905--1309992	31	2.8	31	94	3	151	19	19	22	38	1.93
1314177--1314299	31	4.0	31	94	2	203	20	19	22	37	1.94
1315145--1315424	127	2.2	128	97	0	526	33	18	24	23	1.97
1315492--1315532	8	5.2	8	82	5	57	36	29	0	34	1.58
1318534--1318570	13	2.8	13	100	0	74	40	0	0	59	0.97
1329304--1329911	306	2.0	305	90	0	966	30	10	21	37	1.87
1331410--1331615	100	2.1	100	95	0	367	31	10	26	31	1.90
1331456--1331611	47	3.2	47	63	22	113	30	10	26	32	1.90
1333800--1333860	2	32.5	2	80	12	76	50	0	0	49	1.00
1342839--1342897	31	1.9	31	92	0	100	40	6	10	42	1.65
1342922--1342964	22	2.0	22	100	0	86	51	13	0	34	1.42
1342978--1343052	22	3.2	23	71	17	73	54	16	0	29	1.42
1342927--1343486	80	6.9	80	80	10	609	52	12	0	34	1.43
1343125--1343210	14	5.6	14	72	20	73	56	6	0	36	1.26
1343103--1343215	32	3.5	32	98	0	217	54	9	0	35	1.33
1343199--1343285	22	4.0	22	90	0	138	49	10	2	37	1.50
1343265--1343662	32	14.4	31	69	26	240	53	12	0	33	1.43
1343404--1343454	22	2.4	22	86	3	77	56	7	0	35	1.28
1343414--1343462	22	2.2	22	85	3	62	57	8	2	32	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1343466--1343508	22	2.0	22	100	0	86	51	13	0	34	1.42
1342922--1343585	321	2.1	315	86	8	923	52	12	0	34	1.44
1343471--1343617	77	1.9	80	94	4	264	52	14	0	32	1.43
1343521--1343593	22	3.1	22	76	11	65	54	16	0	28	1.42
1343548--1343662	54	2.1	54	98	0	221	53	11	0	35	1.37
1343597--1343690	22	4.1	22	69	8	80	50	9	0	40	1.35
1343642--1343771	15	8.5	15	79	13	140	50	2	0	46	1.19
1343616--1343771	49	3.3	49	82	11	186	50	3	0	45	1.24
1343685--1343823	30	4.9	30	73	18	120	48	1	0	49	1.15
1343702--1343819	15	6.9	17	75	17	88	50	1	0	47	1.17
1361983--1362292	170	1.8	171	81	6	387	41	6	12	39	1.69
1362261--1362911	322	2.0	317	84	4	824	42	6	11	40	1.66
1363931--1363971	16	2.6	16	88	3	57	36	12	21	29	1.90
1366958--1367015	28	2.0	29	90	3	91	43	5	6	44	1.53
1367451--1367477	14	1.9	14	100	0	54	40	0	7	51	1.30
1369201--1369267	30	2.2	30	91	0	107	11	47	22	17	1.80
1369210--1369275	30	2.3	28	89	7	98	10	43	28	16	1.81
1369234--1369297	27	2.4	27	86	0	83	14	43	23	18	1.86
1373822--1373910	44	2.0	44	100	0	178	19	17	13	49	1.79
1389602--1389692	44	2.0	45	97	2	175	18	8	40	31	1.81
1391675--1391768	44	2.1	44	92	0	152	20	7	27	44	1.78
1394392--1394466	18	4.3	18	70	16	68	6	34	8	50	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1394664--1394688	5	5.0	5	100	0	50	0	20	0	80	0.72
1396827--1396855	3	9.7	3	100	0	58	31	0	0	68	0.89
1402178--1402237	23	2.6	23	77	17	61	33	0	1	65	1.03
1402177--1402237	24	2.6	23	73	21	56	34	0	1	63	1.04
1402205--1402237	16	1.9	17	88	11	50	36	0	3	60	1.12
1402197--1402239	17	2.4	18	78	17	54	34	0	2	62	1.08
1407022--1407067	2	23.0	2	90	0	74	50	4	0	45	1.21
1415133--1415172	15	2.7	15	80	11	55	0	32	25	42	1.55
1420089--1420114	4	6.5	4	100	0	52	23	0	0	76	0.78
1420891--1420916	2	13.0	2	100	0	52	50	0	0	50	1.00
1422079--1422230	60	2.6	60	79	6	159	32	22	6	38	1.80
1422123--1422243	60	2.0	60	83	3	154	32	23	6	37	1.81
1422382--1422553	60	2.9	60	79	9	167	40	5	20	33	1.76
1423578--1423602	2	12.5	2	100	0	50	48	0	0	52	1.00
1434301--1434339	21	1.9	20	84	5	51	48	7	0	43	1.31
1437047--1437081	18	1.9	18	88	0	52	62	0	0	37	0.95
1463147--1463229	21	3.8	22	81	7	89	21	36	24	18	1.95
1463145--1463207	21	2.9	21	88	4	90	20	34	25	19	1.96
1466752--1466804	24	2.2	23	77	9	61	26	3	5	64	1.33
1470175--1470278	47	2.2	47	86	3	147	33	27	19	19	1.96
1474141--1474212	21	3.4	21	76	3	74	16	15	45	22	1.84
1474353--1474443	41	2.2	41	84	2	110	27	19	19	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1475380--1475421	22	1.9	22	90	9	68	45	16	7	30	1.74
1519736--1519794	22	2.7	22	89	0	100	22	23	27	27	1.99
1520357--1520477	64	1.9	65	83	8	158	20	19	25	33	1.97
1522517--1522762	130	1.9	128	91	1	402	35	14	13	36	1.85
1523090--1523152	28	2.3	27	78	8	63	46	1	3	49	1.27
1523232--1523266	17	1.9	19	88	11	56	65	5	2	25	1.28
1523389--1523431	21	2.0	21	100	0	86	39	0	13	46	1.44
1523400--1523485	35	2.5	35	84	0	100	37	1	20	40	1.61
1529370--1529425	29	1.9	29	100	0	112	14	16	23	46	1.83
1543789--1543868	42	1.9	41	94	2	142	53	5	0	41	1.22
1543790--1543865	15	5.3	15	71	15	70	55	3	0	40	1.18
1546693--1546755	27	2.2	28	86	8	83	69	0	1	28	0.97
1546693--1546738	10	4.7	10	76	13	51	73	0	2	23	0.94
1546701--1546742	18	2.2	20	83	12	52	71	0	0	28	0.86
1546693--1546753	28	2.0	29	87	12	88	68	0	1	29	0.99
1546705--1546766	27	2.2	26	76	18	63	67	1	1	29	1.09
1547268--1547319	3	16.7	3	84	15	54	67	0	0	32	0.91
1547251--1547319	30	2.3	30	82	7	79	66	1	0	31	1.00
1547661--1548430	84	9.2	83	76	6	644	24	19	24	31	1.98
1547677--1548430	249	3.0	249	88	3	1028	24	18	24	31	1.98
1548443--1548535	34	2.8	34	74	16	88	25	21	22	30	1.99
1548554--1548859	110	2.9	108	86	5	392	24	19	22	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1552922--1552991	33	2.1	33	94	0	122	32	10	12	44	1.76
1555162--1555206	23	1.9	24	86	4	65	28	11	20	40	1.86
1570133--1570176	23	1.9	23	95	0	79	50	4	6	38	1.50
1571055--1571103	20	2.4	21	83	10	66	24	32	14	28	1.94
1571153--1571204	20	2.6	20	90	6	79	36	25	19	19	1.95
1571172--1571242	19	3.7	19	83	7	81	35	21	14	29	1.92
1574808--1574925	20	5.9	20	87	0	137	26	19	20	33	1.96
1574808--1574925	40	3.0	40	84	0	155	26	19	20	33	1.96
1574811--1574924	60	1.9	60	90	0	183	25	19	20	35	1.96
1574933--1574974	20	2.1	20	100	0	84	14	23	19	42	1.87

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