genome.fa.s8942.2.7.7.80.10.50.1000.6.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: VEPZ01008942.1 Hibiscus syriacus cultivar Beakdansim tig00112261_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2383254

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

This is table  6  of  11  ( 1310 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)
1091180--1091233	21	2.8	20	77	11	67	57	1	25	14	1.48
1092366--1092440	35	2.1	35	82	4	89	38	16	6	38	1.74
1092366--1092440	18	4.3	17	77	9	71	38	16	6	38	1.74
1092846--1092895	24	2.0	25	85	11	68	38	14	8	40	1.75
1097978--1098062	28	3.0	28	92	0	143	27	20	30	22	1.98
1101942--1102689	137	5.5	136	81	5	750	25	19	22	33	1.97
1102692--1102716	13	1.9	13	100	0	50	32	0	16	52	1.44
1102708--1102751	20	2.3	19	80	4	52	38	0	18	43	1.50
1105599--1105650	13	3.9	13	87	7	70	53	0	0	46	1.00
1105599--1105650	25	2.0	27	85	11	72	53	0	0	46	1.00
1106312--1106357	24	1.9	24	91	8	76	36	0	0	63	0.95
1107975--1108055	42	2.0	41	82	2	99	28	29	16	25	1.96
1108626--1108672	24	2.0	24	86	0	67	48	10	0	40	1.38
1108573--1108706	46	3.0	45	80	12	127	44	8	2	43	1.50
1108626--1108688	24	2.6	24	80	7	65	47	9	1	41	1.45
1110367--1110410	19	2.3	19	92	0	79	36	15	6	40	1.74
1116516--1116567	20	2.6	20	78	6	61	34	32	17	15	1.91
1116619--1116890	20	13.4	20	73	8	156	38	24	18	19	1.93
1116619--1116890	40	6.7	40	84	4	314	38	24	18	19	1.93
1116680--1116890	41	5.2	41	90	1	327	38	24	18	19	1.93
1117429--1117539	20	5.8	19	73	18	90	51	18	18	11	1.76
1117546--1117691	19	8.1	19	68	19	89	14	21	19	43	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1117546--1117662	52	2.2	52	86	4	164	14	21	21	42	1.88
1117627--1117682	20	2.8	20	77	20	71	16	23	19	41	1.90
1117627--1117689	20	3.2	20	72	20	60	15	22	17	44	1.86
1119379--1119852	94	5.1	94	96	0	844	21	12	18	47	1.82
1119940--1120017	17	4.5	17	75	18	81	44	23	21	10	1.82
1119917--1120017	19	5.6	18	73	18	86	45	21	20	11	1.83
1119955--1120036	33	2.5	33	91	0	128	48	21	20	8	1.76
1120046--1120180	19	7.6	19	74	17	105	11	21	20	46	1.82
1120043--1120178	52	2.6	50	90	4	200	11	22	20	45	1.83
1120581--1120700	41	2.9	40	79	7	98	22	36	17	23	1.94
1122041--1122076	14	2.6	14	95	0	63	33	0	22	44	1.53
1122183--1122267	19	4.7	19	77	16	101	45	20	21	12	1.84
1122215--1122277	19	3.3	19	88	4	92	44	22	17	15	1.86
1122273--1122377	19	5.7	19	71	13	94	12	20	20	46	1.82
1122277--1122390	33	3.3	33	79	13	138	12	21	20	45	1.83
1124923--1124969	24	2.0	24	95	0	85	36	21	21	21	1.96
1126293--1126441	20	7.3	20	74	8	131	18	18	22	40	1.91
1126293--1126502	40	5.2	40	80	5	217	18	18	23	39	1.92
1126450--1126502	20	2.7	20	88	5	72	13	20	24	41	1.88
1126496--1126548	21	2.5	21	73	11	54	24	18	24	32	1.97
1126490--1126584	20	4.7	20	69	18	61	21	18	27	32	1.97
1131325--1131546	81	2.7	80	82	6	252	39	9	20	29	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1138226--1138269	22	2.0	22	90	0	70	34	11	22	31	1.90
1138176--1138398	81	2.7	81	88	3	315	36	12	22	28	1.90
1142775--1143196	54	7.8	54	91	0	637	34	22	17	26	1.96
1146531--1146577	20	2.5	19	86	6	60	27	12	29	29	1.93
1147003--1147531	54	9.8	54	82	2	589	34	21	16	26	1.95
1147000--1147531	108	4.9	108	85	1	654	34	21	16	26	1.95
1147222--1147307	27	3.2	27	65	23	72	36	20	15	27	1.93
1147003--1147531	162	3.3	161	85	1	655	34	21	16	26	1.95
1151108--1151143	18	1.9	19	94	5	65	0	30	25	44	1.54
1151108--1151158	18	2.8	19	85	5	52	1	27	25	45	1.64
1152736--1152796	23	2.7	23	92	2	97	19	24	32	22	1.97
1156581--1156620	21	1.9	21	85	10	55	35	10	2	52	1.48
1164419--1164461	20	2.2	20	87	4	61	67	0	11	20	1.22
1171250--1171296	24	2.0	24	83	8	60	57	12	2	27	1.47
1177581--1177685	54	1.9	54	84	0	138	34	19	20	26	1.96
1180229--1180264	18	2.0	18	100	0	72	50	5	11	33	1.61
1180702--1180754	25	2.1	25	83	13	65	52	16	3	26	1.61
1183259--1183321	11	5.9	11	69	14	51	39	0	3	57	1.15
1184616--1184640	13	1.9	13	100	0	50	56	0	12	32	1.36
1185202--1185254	20	2.6	21	84	6	72	35	16	13	33	1.88
1191429--1191482	18	3.0	18	97	0	99	51	5	9	33	1.57
1193346--1193531	51	3.9	50	72	16	142	51	13	8	26	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1197259--1197296	17	2.2	18	85	4	51	44	0	2	52	1.14
1197511--1197536	2	13.0	2	100	0	52	50	0	0	50	1.00
1199336--1199391	3	20.0	3	82	14	66	66	1	0	32	1.03
1199336--1199388	19	2.8	19	85	0	70	66	1	0	32	1.03
1199314--1199395	22	3.8	21	79	7	83	62	1	0	36	1.03
1199336--1199391	14	4.0	15	75	15	66	66	1	0	32	1.03
1199349--1199401	28	2.0	27	89	10	83	69	3	0	26	1.05
1199738--1200360	113	5.5	112	89	3	894	27	19	15	38	1.91
1200395--1200466	3	24.0	3	88	0	108	38	0	0	61	0.96
1200399--1200475	9	7.5	11	70	25	53	41	0	0	58	0.98
1200916--1200957	15	2.8	15	89	7	59	76	2	21	0	0.90
1200916--1200957	20	2.1	20	86	8	59	76	2	21	0	0.90
1201145--1201182	16	2.4	16	100	0	76	18	28	44	7	1.78
1202536--1202622	28	3.1	27	75	18	81	27	6	3	62	1.37
1205953--1205985	15	2.3	15	89	5	50	48	0	3	48	1.17
1213246--1213287	11	3.9	11	87	3	59	85	0	14	0	0.59
1213246--1213285	13	3.2	12	89	10	62	87	0	12	0	0.54
1213247--1213287	21	1.9	22	95	5	75	85	0	14	0	0.60
1213598--1213642	16	2.8	16	83	10	56	28	8	6	55	1.56
1214439--1214820	83	4.6	83	94	2	633	25	13	22	37	1.92
1215650--1216614	113	8.5	113	94	0	1409	36	14	18	30	1.90
1216872--1216967	3	32.0	3	97	0	183	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1217417--1217452	15	2.4	15	90	9	56	77	2	19	0	0.88
1218594--1218641	19	2.5	19	96	0	87	47	4	8	39	1.53
1227740--1227795	24	2.5	22	77	11	60	66	1	5	26	1.23
1228318--1228355	17	2.2	18	85	4	51	44	0	2	52	1.14
1230426--1230478	3	19.0	3	81	14	60	66	1	0	32	1.03
1230426--1230481	19	3.0	18	79	7	67	66	1	0	32	1.03
1230404--1230482	22	3.8	21	77	14	74	62	1	0	36	1.04
1230426--1230489	22	2.9	22	77	13	69	67	3	0	29	1.06
1237311--1237421	38	2.8	39	91	6	163	29	17	9	44	1.79
1237333--1237421	38	2.4	38	98	1	171	30	17	6	44	1.75
1237522--1237572	13	3.9	13	78	17	52	50	1	1	45	1.24
1237523--1237575	26	2.0	26	85	7	72	49	1	1	47	1.23
1238811--1238849	17	2.5	16	88	12	55	74	2	5	17	1.12
1239755--1239807	27	2.0	27	85	7	72	52	1	3	41	1.30
1242604--1242646	17	2.5	17	84	0	59	34	16	6	41	1.75
1245304--1245373	31	2.3	31	97	0	131	25	31	10	32	1.89
1245434--1245495	17	3.6	17	82	4	70	40	9	14	35	1.79
1245451--1245494	18	2.5	18	85	10	56	43	11	9	36	1.72
1249145--1249189	17	2.6	17	89	0	72	44	6	15	33	1.73
1250593--1250630	8	4.6	8	84	15	51	84	0	2	13	0.73
1250689--1250713	8	3.1	8	100	0	50	36	12	0	52	1.39
1253807--1253900	41	2.3	41	79	1	116	38	26	14	20	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1256092--1256130	14	2.8	14	80	0	51	10	17	43	28	1.82
1256236--1256366	42	3.1	42	84	2	147	35	19	15	30	1.92
1257674--1257726	27	2.0	26	85	3	70	41	13	15	30	1.85
1260913--1260965	19	2.8	19	94	0	88	22	45	16	15	1.85
1261650--1261710	27	2.3	27	88	0	86	40	9	14	34	1.79
1262560--1262609	19	2.6	19	70	0	55	22	12	14	52	1.74
1263704--1263898	40	4.8	41	77	5	153	37	15	17	29	1.91
1263699--1264022	42	7.9	41	75	9	189	35	14	19	30	1.92
1263704--1264024	123	2.6	123	79	3	306	35	14	19	30	1.92
1263698--1264023	82	4.0	83	75	9	242	35	15	19	30	1.92

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