genome.fa.s8061.2.7.7.80.10.50.1000.7.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: VEPZ01008061.1 Hibiscus syriacus cultivar Beakdansim tig00110556_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5800122

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   

This is table  7  of  26  ( 3118 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)
1111109--1111172	26	2.5	26	94	0	110	23	18	25	32	1.97
1113277--1113642	131	2.9	123	84	10	451	37	4	7	49	1.53
1113395--1113703	117	2.7	116	85	11	390	37	4	5	52	1.45
1121970--1122010	21	2.0	21	86	13	59	56	0	4	39	1.21
1123850--1123894	20	2.3	19	78	14	56	53	11	15	20	1.72
1123456--1123927	180	2.6	183	87	2	648	41	13	16	27	1.86
1126111--1126171	20	3.0	21	90	4	88	42	11	27	18	1.84
1126207--1126272	33	2.0	33	90	0	105	28	0	48	22	1.51
1128053--1128101	19	2.6	19	93	0	80	34	2	8	55	1.41
1128335--1129477	200	5.8	200	91	4	1871	35	15	18	30	1.91
1128380--1129477	379	2.8	379	93	3	1793	35	14	18	31	1.91
1130971--1131016	18	2.6	18	89	0	65	41	4	32	21	1.73
1130971--1131020	3	16.7	3	78	0	55	40	4	32	24	1.73
1130971--1131016	12	3.8	12	91	0	65	41	4	32	21	1.73
1132230--1132817	183	3.2	183	95	0	1059	34	14	16	34	1.89
1132693--1132910	120	1.8	120	93	0	382	33	12	15	38	1.85
1132699--1132936	120	2.0	119	83	3	271	35	13	15	35	1.87
1133085--1133149	20	3.2	20	100	0	130	10	24	21	43	1.84
1133141--1133193	22	2.4	22	93	0	97	16	16	28	37	1.91
1133305--1133338	12	3.1	11	91	8	52	29	52	17	0	1.45
1133989--1134036	19	2.5	19	100	0	96	41	18	20	18	1.90
1133944--1134057	22	5.5	22	82	6	96	39	23	18	18	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1134002--1134156	20	7.9	20	69	16	85	38	22	21	17	1.93
1134021--1134123	41	2.5	41	90	4	154	36	23	21	18	1.95
1133927--1134118	82	2.3	81	81	7	201	39	23	18	18	1.92
1134089--1134155	34	2.0	34	90	0	107	37	25	22	14	1.93
1134381--1134627	120	2.1	120	96	0	449	31	14	16	37	1.88
1134688--1134930	120	2.0	120	93	0	414	33	12	14	39	1.85
1134289--1135398	303	3.7	303	97	0	2085	33	14	16	35	1.89
1134991--1135233	120	2.0	120	95	0	441	32	13	15	37	1.87
1137185--1137257	23	3.2	23	94	0	119	34	4	21	39	1.73
1139105--1139149	20	2.2	20	96	0	81	13	24	20	42	1.87
1139141--1139196	21	2.9	19	78	7	60	25	14	21	39	1.91
1139826--1139851	13	2.0	13	100	0	52	38	23	7	30	1.83
1139842--1139907	19	3.3	19	72	12	69	40	21	19	18	1.91
1139857--1139928	22	3.4	22	73	11	87	37	25	19	18	1.94
1139842--1139928	41	2.1	41	100	0	174	39	22	19	18	1.93
1139917--1139993	21	3.7	21	75	3	84	33	25	16	23	1.96
1140259--1140511	43	5.9	42	79	7	206	24	22	18	34	1.96
1140259--1140517	85	3.0	84	79	5	270	24	22	18	34	1.96
1140353--1140529	86	2.1	85	82	3	212	23	24	19	32	1.97
1142577--1142782	43	4.9	43	79	2	186	28	14	24	32	1.95
1142577--1142783	86	2.5	86	79	3	215	28	14	24	32	1.94
1142615--1142954	43	8.0	43	80	5	260	22	17	24	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1142754--1142910	42	3.8	40	82	9	170	17	17	27	36	1.93
1143369--1143454	21	4.1	21	89	3	120	0	32	20	46	1.51
1143426--1143490	21	3.1	21	79	0	76	3	38	16	41	1.64
1144515--1144541	10	2.7	10	100	0	54	70	11	18	0	1.16
1146474--1146799	134	2.4	134	81	1	359	33	18	15	33	1.91
1148115--1148273	41	3.9	41	87	2	214	31	19	13	35	1.91
1148099--1148316	82	2.7	80	79	9	226	31	17	15	35	1.92
1148157--1148410	41	6.2	42	74	14	140	28	19	16	35	1.94
1148997--1149045	2	25.0	2	95	4	91	48	0	0	51	1.00
1149357--1149394	19	2.0	20	94	5	69	68	0	0	31	0.90
1165567--1165665	28	3.3	29	80	10	87	25	3	8	63	1.36
1165589--1165660	29	2.4	30	78	17	78	25	4	6	63	1.37
1166460--1166518	24	2.5	24	94	0	100	33	6	3	55	1.43
1173682--1173803	63	2.0	62	82	7	151	45	4	5	43	1.49
1175396--1175517	63	1.9	63	81	6	149	43	4	5	45	1.49
1178057--1178088	11	2.9	11	90	0	55	43	0	0	56	0.99
1178057--1178386	22	15.3	21	79	7	137	41	0	10	48	1.39
1178071--1178387	108	2.9	108	87	3	471	41	0	10	47	1.40
1178094--1178387	44	6.8	43	88	4	423	41	0	10	47	1.41
1178094--1178390	64	4.6	65	88	2	330	42	0	10	47	1.40
1182123--1182164	22	1.9	22	90	0	66	33	26	14	26	1.94
1200802--1200846	16	2.9	15	80	9	54	13	2	26	57	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1202424--1202483	24	2.6	23	80	17	63	35	6	15	43	1.72
1208758--1208789	16	2.0	16	93	0	55	15	0	0	84	0.63
1209672--1209702	2	15.5	2	100	0	62	51	0	48	0	1.00
1210983--1211017	18	1.9	18	94	0	61	48	17	11	22	1.79
1211804--1211944	70	2.0	70	93	2	239	31	9	24	34	1.88
1213614--1213717	34	3.1	34	100	0	208	44	20	5	29	1.74
1214704--1214784	36	2.2	36	95	0	144	19	19	23	37	1.95
1214704--1214816	36	3.3	33	82	10	97	22	20	23	34	1.97
1219723--1219775	22	2.4	21	85	14	72	54	0	0	45	0.99
1219724--1219781	19	2.9	19	85	10	64	55	0	0	44	0.99
1219754--1219786	16	2.1	16	88	11	50	54	3	0	42	1.15
1220130--1220238	38	2.9	38	88	10	154	20	21	11	47	1.80
1220186--1221159	109	8.8	112	89	5	1439	27	19	16	37	1.92
1220186--1221161	220	4.4	224	90	6	1431	27	19	15	37	1.92
1221452--1221556	52	2.0	52	100	0	210	33	17	13	36	1.88
1223168--1223214	18	2.7	18	78	18	55	51	6	10	31	1.62
1223540--1223590	21	2.5	21	90	6	79	0	13	0	86	0.58
1223541--1223590	20	2.5	21	83	9	68	0	14	0	86	0.58
1223539--1223590	7	7.4	7	81	18	56	0	15	0	84	0.62
1230718--1230749	15	2.1	15	94	0	55	46	9	18	25	1.79
1235203--1235241	9	4.4	9	83	3	53	48	0	0	51	1.00
1235178--1235238	18	3.4	18	84	10	81	49	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1240669--1240737	23	3.0	23	65	12	61	30	33	17	18	1.94
1243858--1243899	2	21.0	2	100	0	84	0	50	0	50	1.00
1243899--1243941	2	21.5	2	100	0	86	48	0	0	51	1.00
1245456--1245492	19	1.9	19	100	0	74	10	29	5	54	1.57
1246719--1247252	133	4.0	134	88	2	770	46	14	16	23	1.83
1246719--1247252	268	2.0	266	89	1	807	46	14	16	23	1.83
1253787--1253819	15	2.2	15	94	0	57	45	0	0	54	0.99
1255502--1255576	23	3.3	22	70	15	71	41	8	18	32	1.80
1255476--1255585	46	2.4	46	92	3	179	42	5	18	33	1.73
1255737--1255832	38	2.5	38	84	3	122	27	20	26	26	1.99
1267675--1267703	2	14.5	2	100	0	58	0	48	0	51	1.00
1268369--1268399	3	10.3	3	100	0	62	35	0	0	64	0.94
1279471--1279540	23	3.0	23	79	4	86	30	24	25	20	1.99
1279923--1279972	20	2.5	19	84	12	64	34	14	0	52	1.42
1284288--1284338	20	2.4	21	81	15	61	33	15	0	50	1.44
1284312--1284356	20	2.2	20	84	0	54	37	15	2	44	1.59
1290153--1290202	26	2.0	26	88	7	77	58	0	6	36	1.23
1290153--1290202	25	2.0	23	85	11	64	58	0	6	36	1.23
1290191--1290445	30	8.7	30	80	8	215	53	0	8	37	1.37
1290221--1290273	25	2.1	25	89	3	79	54	1	1	41	1.22
1290194--1290424	86	2.7	85	77	9	207	53	0	8	37	1.37
1290592--1290625	15	2.4	14	90	5	50	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1293116--1293184	31	2.2	31	86	0	93	26	27	11	34	1.91
1300537--1300601	31	2.1	31	91	0	103	38	15	23	23	1.92
1315394--1315431	13	3.2	12	85	10	51	44	2	5	47	1.39
1315610--1315652	16	2.8	15	86	6	59	51	0	0	48	1.00
1315994--1316023	15	2.0	15	93	0	51	26	3	13	56	1.52
1316264--1316307	22	2.0	22	86	8	63	25	27	6	40	1.80
1316305--1316341	16	2.4	16	86	8	51	29	5	0	64	1.15
1319400--1319442	20	2.2	20	95	0	77	20	18	23	37	1.94
1320956--1321054	21	4.7	21	79	3	110	23	20	33	23	1.97
1320936--1321054	42	2.8	42	87	0	166	24	19	33	22	1.97

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