genome.fa.s8209.2.7.7.80.10.50.1000.5.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: VEPZ01008209.1 Hibiscus syriacus cultivar Beakdansim tig00110831_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6561538

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   

This is table  5  of  30  ( 3569 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)
1224978--1225308	158	2.1	158	90	1	511	32	11	12	43	1.78
1225147--1225564	135	3.1	135	92	0	692	32	12	13	41	1.82
1226490--1226519	14	2.1	14	93	0	51	60	10	13	16	1.59
1226483--1226530	24	2.0	24	91	0	78	58	12	12	16	1.63
1226477--1226549	34	2.1	34	84	0	92	60	13	10	15	1.59
1230308--1230397	29	3.0	30	80	16	98	47	11	3	37	1.56
1235702--1235742	19	2.2	19	91	4	66	73	7	4	14	1.22
1236418--1236444	12	2.2	12	100	0	54	0	7	0	92	0.38
1237051--1237094	3	15.7	3	81	13	58	61	0	2	36	1.09
1237338--1237951	113	5.5	113	91	2	1026	29	18	14	37	1.91
1238687--1239620	81	11.5	81	91	3	1477	35	21	13	29	1.92
1238687--1239617	164	5.7	162	96	1	1573	35	21	13	29	1.92
1240186--1240227	19	2.2	20	91	4	68	52	11	4	30	1.59
1240555--1240587	17	2.0	17	94	5	59	0	9	0	90	0.44
1245194--1245509	157	2.0	158	99	0	625	25	18	18	37	1.93
1251750--1251798	19	2.7	18	87	9	73	73	6	4	16	1.19
1252583--1252679	29	3.3	29	84	11	126	6	21	7	64	1.40
1253173--1253214	3	14.0	3	100	0	84	66	0	0	33	0.92
1255786--1255858	22	3.3	22	86	0	110	26	27	23	23	2.00
1256217--1256269	24	2.2	24	86	6	72	41	0	7	50	1.30
1257332--1257374	22	2.0	22	100	0	86	9	37	23	30	1.86
1270944--1271009	18	3.7	18	100	0	132	39	13	24	22	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1271214--1271293	41	2.0	40	92	2	133	46	8	13	31	1.74
1272312--1272390	2	41.5	2	80	14	87	45	2	1	50	1.23
1273582--1273652	17	3.8	19	73	23	53	26	4	2	66	1.24
1273862--1273925	34	2.0	32	84	9	85	14	7	1	76	1.07
1273863--1273935	34	2.3	32	78	15	80	15	8	1	75	1.10
1273916--1273989	28	2.7	28	78	17	75	14	5	8	71	1.28
1285231--1286372	106	10.9	105	91	2	1705	33	25	18	22	1.96
1285231--1286372	317	3.6	314	90	2	1710	33	25	18	22	1.96
1286897--1286960	2	34.0	2	76	17	57	45	3	1	50	1.27
1298984--1299032	19	2.7	17	84	9	53	26	20	28	24	1.99
1299004--1299129	65	1.9	64	87	6	182	29	19	22	28	1.98
1299984--1300025	17	2.5	17	96	0	75	47	9	7	35	1.64
1304395--1304466	26	2.9	24	74	11	65	61	1	1	36	1.14
1304433--1304491	26	2.3	26	85	8	77	55	0	1	42	1.09
1304419--1304479	22	2.6	24	79	7	72	54	1	3	40	1.27
1304453--1304510	26	2.2	27	84	3	73	50	0	5	44	1.24
1307777--1307801	9	2.8	9	100	0	50	28	0	0	72	0.86
1307907--1308014	4	25.2	4	72	17	67	19	7	1	71	1.19
1307895--1307960	10	6.4	10	73	25	57	21	3	0	75	0.93
1307907--1308014	13	8.4	12	72	16	67	19	7	1	71	1.19
1318062--1318119	14	4.0	14	72	14	55	77	1	17	3	0.99
1318072--1318110	20	2.0	20	85	10	53	74	2	17	5	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1318065--1318118	28	1.9	28	85	7	74	77	1	16	3	1.00
1318928--1319170	65	3.8	65	82	4	273	36	21	14	27	1.93
1321081--1321150	29	2.3	31	82	7	81	21	4	1	72	1.09
1321101--1321245	4	34.5	4	72	13	87	18	6	2	73	1.15
1321101--1321245	13	10.8	13	73	18	84	18	6	2	73	1.15
1322758--1322802	22	2.0	22	87	8	65	53	0	2	44	1.13
1324423--1324511	27	3.4	26	71	10	74	57	1	1	40	1.13
1324445--1324531	25	3.4	24	80	12	86	55	0	2	42	1.12
1324494--1324550	25	2.3	26	81	6	64	49	0	5	45	1.24
1327506--1327549	20	2.2	20	87	0	61	38	15	2	43	1.60
1339980--1340079	23	4.3	23	91	3	130	36	25	14	25	1.93
1355163--1355582	207	2.0	208	98	1	817	34	17	10	37	1.85
1356035--1356070	18	1.9	18	88	5	54	25	36	19	19	1.95
1356164--1356204	21	2.0	21	85	0	55	34	21	24	19	1.97
1357410--1357457	19	2.5	20	82	3	62	52	6	12	29	1.63
1358648--1358767	62	1.9	63	84	5	163	34	30	20	15	1.94
1358808--1358848	21	2.0	21	90	0	64	31	21	26	19	1.97
1360480--1360559	38	2.2	36	86	6	108	37	16	10	36	1.82
1360480--1360595	35	3.2	37	82	8	123	35	17	9	37	1.82
1360853--1361185	130	2.6	130	82	2	375	27	32	16	24	1.96
1361372--1361403	12	2.5	13	95	5	57	40	0	0	59	0.97
1382072--1382101	15	2.0	15	100	0	60	40	6	26	26	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1382338--1382377	21	1.9	21	94	0	71	17	22	27	32	1.96
1383054--1383106	2	26.5	2	100	0	106	50	0	0	49	1.00
1384707--1384740	16	2.1	17	88	5	52	38	2	17	41	1.65
1388907--1388994	32	2.8	33	86	10	123	25	47	15	11	1.79
1388912--1389002	29	3.0	30	88	7	123	25	45	17	12	1.83
1389535--1389560	2	13.0	2	100	0	52	50	0	0	50	1.00
1389656--1389704	24	2.2	23	82	10	57	36	2	10	51	1.48
1389665--1389718	24	2.2	24	87	6	74	42	0	12	44	1.43
1390930--1390967	20	1.9	20	88	0	58	36	21	13	28	1.91
1391685--1391763	20	4.0	20	89	0	131	48	20	13	17	1.81
1391749--1391792	20	2.2	21	80	12	56	38	13	22	25	1.91
1391676--1391763	40	2.2	40	89	0	131	47	19	14	18	1.82
1391760--1391882	20	6.2	20	84	1	140	21	13	20	45	1.84
1392431--1392486	3	19.0	3	79	3	51	1	28	7	62	1.32
1392691--1392768	24	3.2	24	94	0	129	38	19	20	21	1.94
1392894--1392927	12	2.8	12	90	0	50	14	0	29	55	1.40
1393854--1393933	20	4.0	20	79	4	81	26	15	22	36	1.93
1394947--1394981	18	1.9	18	94	0	61	77	0	22	0	0.78
1395042--1395069	2	14.0	2	100	0	56	50	0	50	0	1.00
1395385--1395413	2	14.5	2	100	0	58	51	0	0	48	1.00
1400179--1400221	21	2.0	21	81	0	50	30	30	25	13	1.94
1400248--1400285	20	1.9	20	88	0	58	26	34	28	10	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1400764--1400981	103	2.1	103	93	0	373	24	11	24	39	1.88
1400998--1401060	23	2.7	23	87	4	92	20	26	26	25	1.99
1404088--1404258	66	2.6	66	82	6	204	28	21	12	38	1.89
1404311--1404422	43	2.6	43	88	2	163	26	34	16	22	1.95
1404354--1404659	134	2.3	131	84	6	386	25	31	19	23	1.98
1404838--1404883	3	15.3	3	82	17	60	32	0	0	67	0.91
1404838--1404885	12	4.1	11	87	12	69	31	0	0	68	0.90
1404838--1404883	24	1.9	24	91	8	76	32	0	0	67	0.91
1405333--1405371	19	2.0	20	90	5	62	71	2	25	0	0.98
1412363--1412411	11	4.5	11	86	0	71	4	34	0	61	1.15
1412363--1412411	22	2.2	22	96	0	89	4	34	0	61	1.15
1412602--1412728	3	42.0	3	89	4	193	32	0	1	66	1.02
1417826--1417890	23	2.8	23	92	0	112	32	20	30	16	1.95
1418264--1418379	51	2.3	49	78	11	110	70	8	12	7	1.33
1418350--1418374	9	2.8	9	100	0	50	92	8	0	0	0.40
1419655--1419694	16	2.5	16	87	0	53	47	25	2	25	1.64
1420278--1420401	36	3.4	36	84	2	151	32	16	12	38	1.86
1420439--1420497	31	1.9	31	86	3	84	28	13	16	40	1.87
1420605--1420668	33	1.9	33	83	0	83	32	17	10	39	1.84
1420702--1420758	30	1.9	30	85	3	80	22	21	12	43	1.85
1420714--1420787	30	2.5	30	82	4	78	28	20	10	40	1.86
1420763--1420902	65	2.1	66	82	5	167	29	17	13	40	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1420783--1420942	65	2.4	66	78	9	157	28	16	15	39	1.89
1421058--1421195	29	4.8	29	85	6	165	26	8	16	48	1.75
1421142--1421312	92	1.9	91	86	3	247	28	11	14	45	1.80
1421232--1421289	30	2.0	30	86	3	82	31	12	12	44	1.78
1421232--1421292	29	2.1	28	84	6	77	34	11	11	42	1.77
1421720--1421795	40	1.9	39	91	2	125	19	38	18	23	1.93
1421575--1421933	134	2.7	133	88	0	511	26	32	17	24	1.97
1421854--1421972	43	2.9	40	73	7	114	24	33	17	24	1.96
1422132--1422238	3	35.0	3	84	7	135	32	0	1	64	1.11
1422133--1422238	40	2.7	40	85	5	151	33	0	1	64	1.11

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30