genome.fa.s8981.2.7.7.80.10.50.1000.6.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: VEPZ01008981.1 Hibiscus syriacus cultivar Beakdansim tig00112343_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1473337

Tables:   1   2   3   4   5   6   7   

This is table  6  of  7  ( 776 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)
1182183--1182236	20	2.7	20	97	0	99	25	18	24	31	1.97
1182123--1182239	61	1.9	61	85	0	162	23	17	24	33	1.97
1182123--1182257	61	2.2	61	81	2	155	22	20	24	32	1.98
1182307--1182347	21	2.0	21	85	0	55	34	31	17	17	1.93
1189408--1189432	2	12.5	2	100	0	50	0	0	52	48	1.00
1189432--1189478	2	23.5	2	100	0	94	48	0	51	0	1.00
1192893--1193047	60	2.6	59	79	9	154	41	3	19	34	1.70
1196470--1196520	24	2.1	24	85	7	68	13	41	5	39	1.69
1201417--1201739	159	2.0	157	80	5	351	34	22	15	27	1.94
1214963--1215006	22	2.0	22	86	4	61	52	6	0	40	1.28
1217455--1217816	179	2.0	180	95	0	654	42	7	17	33	1.76
1222962--1223041	24	3.5	22	75	19	76	23	1	1	73	0.97
1222962--1223010	4	12.2	4	83	16	66	24	0	2	73	0.94
1222957--1223038	12	6.6	12	77	21	64	24	1	1	73	0.98
1225729--1225765	5	7.4	5	93	0	56	18	0	2	78	0.87
1226720--1226769	19	2.6	19	100	0	100	16	28	38	18	1.91
1226698--1226745	14	3.4	14	97	0	87	14	27	37	20	1.92
1228099--1228133	18	1.9	18	88	0	52	54	0	17	28	1.43
1231807--1231856	19	2.6	19	100	0	100	16	28	38	18	1.91
1231785--1231832	14	3.4	14	97	0	87	14	27	37	20	1.92
1233188--1233222	18	1.9	18	88	0	52	54	0	17	28	1.43
1238672--1238827	43	3.4	43	68	19	127	36	25	17	21	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1238546--1239006	106	4.5	106	89	6	721	33	24	18	23	1.96
1238562--1238960	200	2.0	200	96	0	735	34	25	17	22	1.96
1239528--1239640	36	3.1	36	88	5	156	27	22	13	37	1.91
1240067--1240146	24	3.5	22	75	19	76	23	1	1	73	0.97
1240067--1240115	4	12.2	4	83	16	66	24	0	2	73	0.94
1240062--1240143	12	6.6	12	77	21	64	24	1	1	73	0.98
1241631--1241715	23	3.8	22	73	14	68	17	5	3	72	1.18
1241756--1241797	14	3.3	13	81	12	52	28	2	0	69	1.01
1250128--1250152	3	8.3	3	100	0	50	68	0	32	0	0.90
1254516--1254561	3	15.3	3	100	0	92	65	0	0	34	0.93
1254560--1254592	3	11.0	3	100	0	66	33	0	0	66	0.92
1254696--1254811	20	5.8	20	68	17	62	30	28	10	31	1.90
1254763--1254839	20	3.7	21	72	6	68	32	24	10	32	1.89
1254741--1254838	41	2.4	41	80	12	114	31	24	11	32	1.90
1260577--1260611	17	2.1	17	94	0	61	45	17	8	28	1.77
1263569--1263608	21	1.9	21	85	10	55	35	10	2	52	1.48
1266947--1267002	21	2.7	21	91	0	85	23	19	35	21	1.96
1267146--1267187	12	3.5	12	80	6	50	64	2	0	33	1.07
1267415--1267454	21	1.9	21	89	0	62	37	37	10	15	1.80
1267573--1267712	42	3.4	42	90	2	210	17	19	35	27	1.95
1272779--1272835	29	2.0	29	89	0	87	17	35	26	21	1.95
1276476--1276591	50	2.3	51	79	7	130	42	12	9	35	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1279862--1279886	2	12.5	2	100	0	50	48	0	0	52	1.00
1295356--1295532	94	1.9	93	90	3	284	35	5	9	49	1.59
1298336--1298403	34	2.0	34	100	0	136	29	38	5	26	1.80
1302907--1303038	67	2.0	67	93	0	228	41	18	17	22	1.90
1308822--1308865	13	3.0	15	77	16	56	34	29	0	36	1.58
1310086--1310147	21	2.9	21	77	15	65	41	0	0	58	0.98
1310128--1310226	32	3.3	31	79	12	116	49	1	1	48	1.14
1310905--1310931	14	1.9	14	100	0	54	48	0	7	44	1.31
1310947--1310987	14	2.7	16	74	11	50	46	0	0	53	1.00
1311231--1311271	2	22.0	2	80	14	52	46	0	2	51	1.14
1312886--1312923	8	5.0	8	87	9	53	39	0	7	52	1.31
1313015--1313046	13	2.4	14	90	10	50	15	6	0	78	0.95
1314163--1314196	10	3.4	10	87	0	50	20	5	0	73	1.04
1324409--1325078	105	6.4	105	96	0	1223	31	25	18	23	1.97
1326510--1326547	8	5.0	8	87	9	53	39	0	7	52	1.31
1326638--1326669	13	2.4	14	90	10	50	15	6	0	78	0.95
1328600--1328656	21	2.6	22	72	25	66	66	3	1	28	1.18
1329060--1329115	20	2.8	20	94	0	94	42	10	23	23	1.85
1331643--1331690	25	1.9	25	82	0	60	16	37	16	29	1.91
1331677--1331717	12	3.5	12	83	16	59	7	58	0	34	1.26
1331791--1331825	6	5.8	6	100	0	70	0	68	0	31	0.90
1337180--1337243	29	2.2	29	83	10	78	71	1	1	25	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1344553--1344669	60	2.0	60	85	0	162	36	14	12	35	1.85
1344544--1344690	60	2.5	60	78	8	156	34	14	16	35	1.89
1347511--1347616	51	2.1	50	82	5	124	18	30	27	23	1.98
1353349--1353569	110	2.0	111	93	0	381	46	9	8	35	1.67
1353693--1353733	10	4.1	10	84	12	57	39	0	29	31	1.57
1353856--1353979	51	2.5	48	81	6	131	20	29	33	16	1.95
1358022--1358077	20	2.8	20	73	10	60	37	30	10	21	1.87
1358768--1358825	20	2.9	20	92	0	89	50	18	15	15	1.79
1358792--1358845	20	2.7	20	79	0	54	48	24	16	11	1.79
1358848--1358885	20	1.9	20	89	10	60	34	13	18	34	1.89
1358871--1358961	20	4.8	20	68	20	61	16	14	17	51	1.76
1358942--1358970	14	2.1	14	100	0	58	10	13	27	48	1.75
1360497--1360599	39	2.5	42	76	12	115	27	34	16	21	1.95
1360699--1360868	21	8.1	21	71	7	112	20	12	33	32	1.91
1361151--1361262	21	5.3	20	77	12	100	22	35	12	29	1.91
1361151--1361258	42	2.6	42	82	2	128	22	34	12	30	1.92
1363515--1363548	12	2.8	12	90	0	50	14	0	29	55	1.40
1364354--1364481	39	3.2	40	78	11	120	34	11	22	31	1.90
1364414--1364482	20	3.5	20	71	15	63	33	10	24	31	1.89
1368623--1368697	21	3.6	21	94	0	123	28	21	24	26	1.99
1368721--1368762	21	2.0	21	100	0	84	33	23	19	23	1.97
1369330--1369362	5	6.6	5	92	0	57	0	21	54	24	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1370115--1370249	13	10.8	12	70	17	80	77	0	5	15	0.99
1370133--1370165	15	2.2	15	94	0	57	84	0	15	0	0.61
1370191--1370237	20	2.3	20	86	13	62	76	0	2	21	0.89
1370114--1370247	9	14.4	9	75	10	74	77	0	5	15	1.00
1370326--1370370	23	2.2	20	84	15	56	73	4	4	17	1.17
1370655--1370735	37	2.2	37	81	0	90	34	8	13	43	1.75
1370688--1370781	34	2.7	34	90	5	134	30	10	13	44	1.78
1371330--1372266	105	9.0	105	92	1	1436	23	16	26	33	1.96
1372909--1373066	68	2.4	66	84	4	201	35	8	22	32	1.85
1372910--1373092	65	2.7	67	81	4	183	37	8	22	31	1.85
1373042--1373248	36	5.9	35	74	15	160	40	14	19	26	1.90
1373053--1373164	37	3.1	36	82	8	129	41	15	20	22	1.89
1372990--1373248	138	1.9	138	86	1	367	39	13	20	27	1.89
1373683--1373718	18	2.0	18	88	0	54	41	30	8	19	1.81
1374134--1374204	22	3.2	22	95	0	124	28	14	23	33	1.94
1374830--1374882	23	2.3	24	83	6	65	0	15	9	75	1.04
1377855--1377884	15	2.0	15	100	0	60	60	0	20	20	1.37
1377858--1377892	15	2.3	15	90	0	52	65	0	17	17	1.27
1377971--1378086	25	4.6	25	72	17	78	75	0	5	18	1.03
1378042--1378105	30	2.1	31	85	8	87	71	0	3	25	1.00
1377971--1378099	9	13.4	9	69	18	64	75	0	5	17	1.03
1378032--1378177	41	3.4	40	76	19	118	66	1	2	30	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1378032--1378177	44	3.4	45	79	12	146	66	1	2	30	1.11
1378299--1378337	14	2.7	15	88	4	53	71	0	0	28	0.86
1378514--1378594	37	2.2	37	81	0	90	34	8	13	43	1.75
1378540--1378640	34	2.9	33	85	10	130	29	11	12	45	1.78
1378818--1378862	19	2.4	19	85	7	56	55	6	4	33	1.46
1379970--1380020	18	2.9	18	75	13	52	29	25	7	37	1.84
1380547--1380582	18	2.0	18	88	0	54	50	0	0	50	1.00
1385737--1386104	185	2.0	184	90	2	587	42	3	8	45	1.51
1388352--1388403	21	2.6	19	72	24	52	48	0	0	51	1.00
1399492--1399532	16	2.6	16	92	0	64	34	9	9	46	1.70

Tables:   1   2   3   4   5   6   7