genome.fa.s7777.2.7.7.80.10.50.1000.7.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: VEPZ01007777.1 Hibiscus syriacus cultivar Beakdansim tig00110059_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1720799

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

This is table  7  of  10  ( 1086 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)
1211681--1211958	43	6.7	43	78	8	299	22	18	19	39	1.93
1211681--1211958	85	3.4	85	82	6	299	22	18	19	39	1.93
1211680--1211958	127	2.3	119	85	6	362	22	18	19	39	1.92
1211857--1211924	34	2.0	34	88	5	102	22	19	23	35	1.96
1211730--1211958	77	2.9	77	83	8	239	22	18	19	39	1.93
1215473--1215497	13	1.9	13	100	0	50	36	8	40	16	1.77
1215723--1216135	39	11.5	35	76	13	212	43	4	7	44	1.52
1215761--1216067	39	8.2	37	84	8	299	44	4	7	43	1.51
1215684--1216151	38	12.9	37	76	15	342	44	3	8	44	1.52
1215794--1216064	77	3.6	75	84	6	318	45	4	6	42	1.51
1215943--1216161	39	6.4	31	72	18	86	45	3	6	44	1.48
1217242--1217281	6	6.8	6	83	16	57	15	0	2	82	0.77
1217242--1217281	17	2.3	18	87	12	57	15	0	2	82	0.77
1217348--1217400	24	2.2	23	87	12	72	18	5	7	67	1.35
1217439--1217468	3	9.7	3	92	7	51	33	0	0	66	0.92
1221251--1222107	163	5.2	165	82	6	836	30	23	20	25	1.99
1221254--1222107	246	3.5	245	83	5	858	30	23	20	25	1.99
1221251--1222059	83	9.9	83	78	6	796	29	24	20	25	1.99
1221259--1222110	409	2.1	409	86	3	1173	30	24	20	25	1.99
1222795--1222842	25	2.0	25	88	8	73	41	6	6	45	1.54
1222816--1223088	78	3.8	72	81	11	241	43	5	6	43	1.54
1222805--1223045	40	6.6	35	84	9	238	44	5	6	43	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1222805--1223045	34	6.5	37	84	9	257	44	5	6	43	1.52
1223055--1223108	27	2.1	26	86	10	76	40	3	7	48	1.49
1224155--1224208	18	3.1	17	72	17	56	20	9	0	70	1.14
1225967--1226363	202	2.0	193	95	4	713	37	7	13	42	1.71
1227553--1227594	18	2.3	18	100	0	84	47	9	7	35	1.64
1229427--1229475	18	2.8	18	93	3	82	20	44	22	12	1.84
1229494--1229626	29	4.6	29	77	11	121	36	4	18	39	1.71
1229498--1229626	30	4.4	30	78	10	117	37	4	17	40	1.71
1236773--1236806	12	2.8	12	95	0	59	23	26	23	26	2.00
1239316--1239349	12	2.8	12	95	0	59	35	17	26	20	1.95
1240069--1240229	32	5.1	32	86	1	236	36	21	16	25	1.94
1240055--1240267	96	2.3	94	83	7	270	36	19	16	27	1.94
1245404--1245456	22	2.4	22	77	0	61	37	20	18	22	1.94
1255431--1255461	16	1.9	16	93	0	53	48	25	12	12	1.77
1255472--1255616	11	12.5	11	74	9	83	30	22	17	28	1.97
1255470--1255593	36	3.5	37	77	10	116	31	21	18	28	1.97
1255542--1255615	22	3.3	22	90	1	112	27	25	16	31	1.96
1255542--1255616	33	2.2	34	90	2	116	28	25	16	30	1.96
1256331--1256358	3	9.3	3	100	0	56	0	32	0	67	0.91
1257174--1257222	25	2.0	25	84	11	66	46	4	6	42	1.47
1257599--1257650	21	2.5	22	81	6	63	71	1	0	26	0.97
1260198--1260415	119	1.8	117	85	5	305	36	11	10	41	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1264239--1264526	117	2.5	116	81	3	332	38	14	19	26	1.91
1266651--1266692	15	2.8	15	96	0	75	40	4	2	52	1.35
1269854--1269927	20	3.8	19	77	12	62	6	16	0	77	0.98
1269872--1269918	15	3.1	15	96	0	85	6	14	0	78	0.93
1269854--1269933	15	5.5	14	79	11	56	6	16	0	77	0.96
1269845--1269934	29	3.1	28	80	12	101	6	17	0	75	1.01
1271792--1271821	16	1.9	15	93	6	51	40	26	20	13	1.89
1272700--1272741	21	2.0	21	90	9	68	16	0	35	47	1.47
1272716--1272755	14	2.9	14	85	10	55	22	0	27	50	1.50
1272702--1272748	21	2.2	21	85	7	60	19	0	29	51	1.47
1272711--1272760	21	2.4	21	82	0	55	22	0	30	48	1.51
1273621--1273652	16	1.9	17	93	6	57	21	31	15	31	1.95
1275018--1275063	2	23.0	2	100	0	92	50	0	0	50	1.00
1275463--1275502	2	20.0	2	100	0	80	50	0	0	50	1.00
1275024--1275903	440	2.0	440	99	0	1744	47	11	10	30	1.74
1276950--1276980	3	10.3	3	92	0	53	61	3	0	35	1.12
1277386--1277446	32	1.9	32	86	6	88	50	26	11	11	1.72
1277386--1277446	16	3.8	16	71	0	50	50	26	11	11	1.72
1277950--1277975	3	8.7	3	100	0	52	34	0	0	65	0.93
1281546--1281602	21	2.9	19	77	10	69	33	24	17	24	1.96
1281526--1281602	41	1.9	41	89	2	120	33	25	16	23	1.96
1283062--1283102	6	6.8	6	86	8	57	78	0	19	2	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1286031--1286060	15	1.9	16	93	6	53	40	13	33	13	1.83
1295027--1295158	36	3.6	37	83	9	157	43	2	6	46	1.42
1295114--1295189	33	2.3	33	86	2	98	44	5	7	42	1.56
1295216--1295245	15	1.9	16	93	6	53	40	0	6	53	1.27
1295230--1295415	37	5.1	37	74	13	143	43	3	6	46	1.47
1295231--1295399	38	4.6	36	77	10	146	44	3	5	46	1.43
1295102--1295353	129	2.0	125	93	6	429	45	4	6	44	1.49
1297035--1297133	10	10.3	9	79	12	90	15	28	27	29	1.96
1297036--1297133	19	5.1	19	79	16	87	14	28	27	29	1.95
1297034--1297108	29	2.5	30	89	8	118	17	26	26	29	1.97
1297035--1297133	29	3.4	28	84	8	101	15	28	27	29	1.96
1297130--1297187	5	10.8	5	78	14	62	18	51	22	6	1.70
1297130--1297194	22	3.0	22	100	0	130	18	49	23	9	1.76
1297184--1297221	7	5.4	7	100	0	76	15	28	28	26	1.96
1304369--1304467	10	10.3	9	79	12	90	15	28	27	29	1.96
1304370--1304467	19	5.1	19	79	16	87	14	28	27	29	1.95
1304368--1304442	29	2.5	30	89	8	118	17	26	26	29	1.97
1304369--1304467	29	3.4	28	84	8	101	15	28	27	29	1.96
1304464--1304521	5	10.8	5	78	14	62	18	51	22	6	1.70
1304464--1304528	22	3.0	22	100	0	130	18	49	23	9	1.76
1304518--1304555	7	5.4	7	100	0	76	15	28	28	26	1.96
1306556--1306593	20	1.9	20	88	0	58	7	18	0	73	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1306648--1306707	24	2.5	24	78	13	68	28	6	1	63	1.29
1307945--1307989	16	2.9	16	90	3	65	33	0	11	55	1.35
1308529--1308558	15	2.1	15	93	6	53	30	3	0	66	1.07
1308736--1308762	2	13.5	2	100	0	54	48	0	0	51	1.00
1312989--1313021	2	17.0	2	87	6	50	51	3	0	45	1.16
1323120--1323164	14	3.3	14	93	3	74	42	11	35	11	1.76
1323127--1323168	14	3.0	14	96	0	75	42	9	35	11	1.74
1323628--1324100	54	8.6	54	92	2	637	34	13	20	32	1.91
1323623--1324084	107	4.2	109	89	3	653	34	13	19	31	1.91
1323629--1324100	161	2.9	163	88	4	655	34	13	20	32	1.91
1329837--1329890	19	2.7	19	85	8	63	33	16	20	29	1.95
1330238--1330405	57	2.9	57	90	0	255	35	12	18	33	1.88
1330308--1330670	54	6.6	54	86	2	451	36	12	17	33	1.87
1332203--1332253	20	2.5	20	83	0	66	25	25	25	23	2.00
1332264--1332311	20	2.4	21	82	10	64	37	22	16	22	1.94
1339855--1339925	20	3.6	19	84	7	88	35	21	18	25	1.95
1339854--1339930	40	1.9	41	89	2	120	37	19	18	24	1.94
1347436--1347483	25	1.9	26	87	8	73	25	2	6	66	1.26
1347737--1347783	21	2.3	21	81	3	60	23	19	17	40	1.91
1347799--1347847	20	2.5	20	96	0	89	44	24	12	18	1.84
1350116--1350165	21	2.4	21	82	0	64	22	14	32	32	1.93
1350182--1350278	21	4.6	22	68	19	64	21	10	34	34	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1350240--1350291	21	2.5	21	90	0	77	21	17	26	34	1.95
1350118--1350291	63	2.8	63	77	3	163	22	13	32	31	1.92
1350388--1350429	12	3.5	12	83	6	50	23	0	7	69	1.13
1350574--1350711	21	6.6	21	80	3	143	22	34	17	26	1.96
1351873--1351900	14	2.0	14	100	0	56	35	0	21	42	1.53
1351883--1352033	64	2.4	64	87	0	203	31	2	16	49	1.59
1352430--1352465	18	2.0	18	94	0	63	22	2	19	55	1.56
1354896--1354929	12	2.8	12	90	0	50	14	0	29	55	1.40
1355524--1355561	16	2.5	15	84	12	51	65	0	5	28	1.14
1355718--1355788	20	3.5	20	81	9	81	32	12	23	30	1.92

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