genome.fa.s8428.2.7.7.80.10.50.1000.4.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: VEPZ01008428.1 Hibiscus syriacus cultivar Beakdansim tig00111213_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6915314

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  4  of  30  ( 3508 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)
1134573--1134647	35	2.1	35	90	0	114	44	21	0	34	1.53
1134643--1134717	35	2.1	35	85	0	105	38	0	18	42	1.51
1135075--1135237	87	1.9	87	94	0	290	41	10	14	33	1.80
1136082--1136154	23	3.2	23	98	0	137	35	21	8	34	1.84
1137369--1137436	34	2.0	34	100	0	136	38	20	17	23	1.93
1141128--1141174	20	2.4	19	79	10	58	19	19	10	51	1.75
1140914--1141386	182	2.6	181	90	0	712	28	16	13	42	1.85
1143548--1143581	15	2.3	15	94	0	59	29	5	20	44	1.75
1149340--1149560	64	3.5	60	78	10	203	32	20	19	27	1.97
1149553--1149667	56	2.0	58	96	3	216	33	17	17	32	1.93
1150130--1150214	16	5.4	16	64	25	56	38	12	16	31	1.87
1150126--1150223	31	3.2	31	100	0	196	37	12	16	33	1.86
1153302--1153480	64	2.8	64	81	5	200	32	21	19	26	1.97
1153984--1154205	31	7.2	31	95	0	399	38	13	16	32	1.87
1154851--1154927	29	2.6	30	71	10	68	27	1	9	62	1.33
1165742--1165805	32	2.0	33	87	3	94	50	9	0	40	1.35
1165787--1165829	14	2.8	16	79	13	54	55	6	0	37	1.27
1165852--1165881	9	3.2	9	95	4	51	66	3	0	30	1.07
1165980--1166025	16	2.8	17	83	6	67	39	0	2	58	1.10
1166035--1166067	17	1.9	17	100	0	66	21	6	6	66	1.35
1170359--1170447	31	2.9	30	78	9	99	15	31	29	23	1.95
1170593--1170641	2	24.5	2	100	0	98	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1188308--1188342	14	2.5	14	100	0	70	42	8	22	25	1.82
1194267--1194313	21	2.1	23	84	7	62	38	0	8	53	1.32
1194856--1194897	22	2.0	22	85	4	59	42	2	4	50	1.36
1197911--1197954	14	2.9	15	93	6	72	47	13	22	15	1.81
1199337--1199368	16	2.0	16	100	0	64	31	25	12	31	1.92
1199674--1199774	51	2.0	51	98	0	193	34	12	21	30	1.91
1215640--1215681	21	2.0	22	85	4	59	38	9	26	26	1.87
1222253--1222477	112	2.0	112	100	0	450	20	24	21	34	1.97
1226184--1226257	2	37.0	2	100	0	148	50	0	0	50	1.00
1228904--1228950	15	3.1	15	87	0	58	38	2	19	40	1.63
1230647--1230780	67	2.0	67	88	0	196	38	17	22	21	1.94
1233990--1234029	13	2.9	14	81	7	55	22	20	30	27	1.98
1235609--1235642	17	2.1	16	88	5	50	76	0	8	14	1.01
1239799--1239838	15	2.7	16	85	11	50	77	5	2	15	1.04
1245842--1245875	17	2.1	16	88	5	50	76	0	8	14	1.01
1247249--1247278	15	2.0	15	100	0	60	26	13	26	33	1.93
1251453--1251493	21	2.0	21	85	0	55	56	9	7	26	1.58
1256114--1256192	25	3.4	25	67	29	75	37	10	21	30	1.86
1256100--1256228	45	2.9	45	95	0	222	36	8	23	31	1.85
1256878--1256917	17	2.4	17	86	0	53	32	15	12	40	1.84
1256895--1256982	17	5.2	17	72	8	54	29	14	11	44	1.80
1256973--1257018	18	2.6	18	92	0	74	32	6	13	47	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1265887--1265937	17	3.6	14	76	19	52	50	0	3	45	1.20
1265903--1265944	17	2.5	17	96	0	75	47	0	7	45	1.30
1265914--1266011	51	1.9	52	93	2	171	40	5	6	47	1.50
1269562--1269621	28	2.1	28	81	6	68	53	1	1	43	1.20
1269600--1269661	31	2.0	31	87	6	90	53	4	3	38	1.39
1269642--1269805	21	7.6	21	68	21	88	47	5	5	41	1.50
1269631--1269783	22	7.0	21	69	19	66	48	5	3	42	1.44
1269608--1269783	88	2.0	89	86	5	250	49	5	3	41	1.43
1269857--1269910	24	2.3	23	84	6	65	46	5	7	40	1.55
1269888--1269941	15	3.5	15	82	2	63	38	7	9	44	1.65
1270021--1270082	28	2.1	30	85	11	85	32	0	19	48	1.49
1270117--1270143	2	13.5	2	100	0	54	51	0	0	48	1.00
1270254--1270312	4	14.8	4	92	0	100	50	20	0	28	1.48
1270251--1270326	12	6.4	12	87	1	100	48	17	0	34	1.47
1270362--1270447	13	6.8	13	72	18	58	50	1	5	43	1.34
1270183--1270423	133	1.8	133	81	7	296	46	8	2	42	1.47
1270278--1270454	2	87.5	2	65	18	55	48	6	2	42	1.43
1270516--1270540	13	1.9	13	100	0	50	40	0	8	52	1.31
1270516--1270592	11	7.1	12	71	28	50	37	1	10	50	1.45
1270505--1270555	22	2.3	22	89	0	75	37	5	7	49	1.56
1273316--1273757	106	4.3	106	80	8	509	22	18	25	34	1.96
1273364--1273721	197	1.8	197	90	0	581	21	20	23	34	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1274826--1274869	21	2.1	21	87	8	63	4	15	0	79	0.89
1274832--1274883	14	4.0	13	76	16	54	1	21	0	76	0.87
1274829--1274879	16	3.3	15	83	5	57	1	19	0	78	0.85
1274832--1274883	26	2.0	26	85	7	70	1	21	0	76	0.87
1278437--1278471	13	2.7	13	100	0	70	42	5	31	20	1.75
1281905--1281957	24	2.2	23	75	15	54	66	5	9	18	1.41
1286754--1286854	18	5.8	17	72	13	73	47	1	1	48	1.24
1286724--1286908	22	9.7	20	70	18	103	47	3	3	45	1.37
1286754--1286860	31	3.3	33	79	10	96	47	1	1	48	1.23
1286903--1286979	28	2.7	28	86	9	95	37	2	7	51	1.45
1287212--1287581	185	2.0	183	88	6	543	31	11	8	48	1.71
1288166--1288215	26	2.0	25	88	4	73	24	26	18	32	1.97
1290397--1290440	2	22.0	2	100	0	88	50	0	0	50	1.00
1292405--1292435	16	2.0	15	93	6	53	67	0	0	32	0.91
1293370--1293421	21	2.5	21	83	0	68	13	28	34	23	1.92
1297562--1297640	41	1.9	41	97	0	149	27	11	17	43	1.84
1303195--1303223	2	14.5	2	100	0	58	51	48	0	0	1.00
1308235--1308645	55	7.5	55	83	7	410	31	24	15	28	1.96
1308235--1308666	165	2.6	165	79	9	467	31	24	15	28	1.95
1310038--1310138	44	2.3	44	81	11	109	7	20	1	69	1.24
1310109--1310169	28	2.2	27	80	8	70	8	18	0	73	1.07
1310106--1310157	15	3.6	14	78	5	59	7	21	0	71	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1310163--1310195	11	2.8	12	81	9	50	12	12	0	75	1.04
1319826--1319976	45	3.3	45	94	3	248	39	21	9	29	1.86
1324453--1324485	14	2.3	15	90	10	52	33	9	9	48	1.66
1324657--1324747	32	2.8	32	76	22	91	51	0	1	47	1.07
1324983--1325034	27	2.0	25	85	14	70	63	1	0	34	1.06
1337706--1338037	174	1.9	174	87	2	488	23	21	27	27	1.99
1341447--1341486	2	20.0	2	100	0	80	50	0	0	50	1.00
1342297--1342406	55	2.0	55	96	0	202	30	19	12	37	1.89
1366339--1366371	3	11.3	3	93	6	59	36	30	0	33	1.58
1369011--1369046	16	2.2	16	100	0	72	36	5	52	5	1.48
1382768--1382839	22	3.3	22	88	5	110	27	20	25	26	1.99
1382776--1382838	21	3.0	21	92	2	99	23	23	26	25	2.00
1384215--1384375	64	2.5	64	85	5	209	27	20	18	33	1.96
1388236--1388307	22	3.3	22	80	5	92	29	19	25	26	1.99
1388244--1388306	21	3.0	21	83	2	81	25	22	26	25	2.00
1389676--1389836	64	2.5	63	83	5	198	28	19	18	33	1.95
1401361--1401534	90	2.0	88	90	2	276	35	12	7	44	1.70
1412459--1412498	3	13.3	3	100	0	80	67	0	0	32	0.91
1413039--1413084	23	2.0	22	84	12	58	54	0	17	28	1.43
1413170--1413227	28	2.0	29	86	3	82	41	6	15	36	1.74
1413599--1413666	23	3.0	23	82	0	82	20	23	25	30	1.98
1423060--1423117	28	2.0	29	86	3	82	41	6	15	36	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1423489--1423556	23	3.0	23	84	0	91	20	25	25	29	1.99
1427040--1427082	21	2.0	21	81	0	50	32	27	25	13	1.94
1427622--1427667	22	2.1	22	95	0	83	52	4	15	28	1.61
1427770--1427830	2	30.5	2	100	0	122	50	0	0	49	1.00
1428494--1428551	28	2.0	29	86	3	82	41	6	15	36	1.74
1428922--1428990	23	3.0	23	77	8	77	20	24	23	31	1.98
1432481--1432523	21	2.0	21	81	0	50	30	30	25	13	1.94
1433179--1433206	3	9.3	3	100	0	56	67	0	0	32	0.91
1433876--1433933	28	2.0	29	86	3	82	41	6	15	36	1.74
1434267--1434335	23	3.0	23	76	0	75	20	24	23	31	1.98

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