genome.fa.s8824.2.7.7.80.10.50.1000.6.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: VEPZ01008824.1 Hibiscus syriacus cultivar Beakdansim tig00111996_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4603428

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  6  of  19  ( 2203 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)
1008583--1008657	19	4.2	19	73	16	79	48	20	18	13	1.81
1008570--1008644	33	2.3	33	97	0	141	45	21	21	12	1.84
1008583--1008710	52	2.5	50	78	6	123	48	21	16	13	1.80
1009685--1009731	24	2.0	24	91	0	76	29	19	17	34	1.94
1009918--1009942	12	2.1	12	100	0	50	72	0	28	0	0.86
1012216--1012312	19	5.6	19	67	22	79	44	19	23	12	1.85
1012216--1012307	33	2.8	33	93	0	157	45	19	22	11	1.83
1012308--1012431	33	3.8	33	93	2	187	12	20	20	45	1.83
1012340--1012431	19	5.4	19	71	24	87	13	22	18	45	1.84
1012357--1012413	14	3.7	14	72	20	51	12	24	19	43	1.85
1012538--1012574	14	2.6	14	91	0	65	45	21	0	32	1.52
1014325--1014538	94	2.3	93	94	0	365	46	19	13	21	1.83
1016225--1016350	19	7.1	19	76	18	137	46	19	22	11	1.82
1016272--1016328	14	3.7	14	75	20	60	43	22	21	12	1.85
1016225--1016345	33	3.5	33	93	6	188	47	19	21	11	1.80
1016362--1016418	14	3.7	14	70	20	51	14	19	21	45	1.85
1016346--1016424	33	2.4	33	91	0	122	12	17	21	48	1.80
1016406--1016467	20	3.1	20	79	9	81	11	25	17	45	1.82
1018253--1018299	2	24.0	2	95	4	87	51	0	0	48	1.00
1019180--1019880	174	4.0	176	91	4	1125	20	24	7	47	1.75
1022748--1022777	15	1.9	16	93	6	53	16	6	3	73	1.18
1025767--1025806	19	2.1	19	100	0	80	10	5	37	47	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1035238--1035281	20	2.2	20	100	0	88	18	13	18	50	1.79
1035288--1035378	41	2.2	41	84	1	112	37	18	15	28	1.91
1060414--1062097	726	2.3	733	88	5	2462	41	16	15	26	1.88
1061831--1062434	321	1.9	310	87	4	868	43	14	14	27	1.85
1062393--1062488	47	2.0	47	100	0	192	44	10	16	28	1.80
1068327--1068379	28	1.9	28	84	3	72	32	0	1	66	1.03
1068416--1068452	14	2.7	14	84	16	51	27	0	2	70	1.01
1069086--1069127	21	2.0	20	86	4	57	26	50	9	14	1.73
1072688--1072720	15	2.2	15	100	0	66	18	18	18	45	1.86
1075220--1075269	25	2.0	25	92	0	82	28	2	22	48	1.62
1082055--1082089	15	2.4	15	90	4	54	20	25	2	51	1.61
1086464--1086498	14	2.4	15	90	4	54	17	25	5	51	1.67
1089289--1089329	21	1.9	22	85	5	57	26	4	2	65	1.25
1094796--1094926	36	3.6	37	71	16	103	35	19	8	36	1.82
1094922--1095201	71	4.0	70	80	5	307	30	22	9	38	1.85
1096074--1096245	44	3.9	43	79	8	186	33	23	22	20	1.97
1096074--1096249	88	2.0	88	86	4	248	34	23	22	19	1.96
1102573--1102995	54	7.8	54	85	2	510	35	17	15	31	1.91
1107736--1107944	103	2.0	105	97	2	395	29	29	12	29	1.93
1109579--1109990	54	7.6	54	83	0	412	33	16	16	33	1.91
1116256--1116605	192	1.8	192	85	3	499	44	8	7	40	1.61
1126046--1126075	16	1.9	16	93	6	53	20	6	10	63	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1132769--1132805	17	2.2	17	95	0	65	18	13	29	37	1.90
1140135--1140166	14	2.3	14	100	0	64	53	6	12	28	1.62
1179422--1179475	27	1.9	28	85	7	74	64	3	3	27	1.27
1183571--1183682	53	2.1	53	86	0	161	23	16	19	40	1.91
1192673--1192728	13	4.3	13	75	8	51	37	16	17	28	1.91
1199854--1199958	23	4.8	22	77	5	97	14	25	26	33	1.94
1199854--1199958	44	2.4	44	82	6	115	14	25	26	33	1.94
1202410--1202442	16	2.1	16	94	5	59	75	0	6	18	1.00
1202441--1202500	17	3.5	17	77	15	61	56	1	1	40	1.19
1202462--1202530	26	2.7	26	93	4	113	49	4	0	46	1.21
1202500--1202781	39	7.7	37	77	17	261	43	7	2	45	1.46
1202570--1202637	26	2.5	28	85	9	104	45	5	2	45	1.42
1202461--1202674	65	3.4	63	82	8	231	46	6	1	45	1.40
1205018--1205140	44	2.8	44	89	0	183	39	12	18	30	1.87
1205223--1205324	23	4.6	22	75	12	93	17	25	21	35	1.95
1205223--1205324	44	2.3	44	83	6	118	17	25	21	35	1.95
1207430--1207477	17	2.7	18	81	15	64	70	0	2	27	0.98
1213691--1214343	54	12.1	54	88	1	837	32	17	18	31	1.94
1213691--1214343	162	4.0	162	89	1	923	32	17	18	31	1.94
1215536--1215563	13	2.2	13	100	0	56	50	28	14	7	1.69
1217281--1217327	2	25.0	2	87	12	73	46	0	0	53	1.00
1217282--1217327	11	4.0	11	94	5	74	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1217281--1217327	13	3.5	13	88	11	76	46	0	0	53	1.00
1217281--1217334	26	2.2	26	90	6	85	44	1	0	53	1.11
1217281--1217327	17	2.9	17	93	6	80	46	0	0	53	1.00
1232664--1233003	161	2.1	160	80	7	361	28	18	15	37	1.91
1232812--1233004	79	2.4	79	82	5	230	30	18	17	34	1.94
1240276--1240318	21	2.0	21	86	0	59	37	23	16	23	1.94
1241298--1241327	13	2.3	13	94	0	51	23	20	30	26	1.98
1250687--1250743	29	1.9	30	85	3	80	36	15	7	40	1.75
1252701--1252828	66	1.9	68	90	3	206	28	24	14	32	1.94
1253103--1253243	59	2.4	59	97	1	266	34	19	14	31	1.92
1253167--1253326	85	1.9	86	90	1	259	33	21	11	33	1.90
1253108--1253388	144	1.9	145	89	0	438	33	21	12	33	1.91
1253244--1253472	59	3.9	59	94	0	404	30	23	10	35	1.89
1253853--1254025	94	1.8	94	84	0	238	24	25	15	34	1.94
1258631--1259145	59	8.8	59	90	2	714	30	20	14	34	1.92
1258623--1259145	175	3.0	173	86	4	683	30	20	13	34	1.92
1259518--1259698	94	1.9	95	87	1	265	25	24	15	34	1.95
1268980--1269052	28	2.7	28	79	8	80	60	6	6	26	1.48
1270211--1270273	22	2.7	23	79	11	67	42	3	6	47	1.44
1277687--1278224	273	2.0	265	97	2	1004	31	21	24	22	1.98
1278388--1278432	15	3.0	15	100	0	90	26	20	20	33	1.97
1283725--1283983	46	5.7	46	75	7	181	23	19	28	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1285315--1285387	31	2.4	31	85	0	101	30	17	15	36	1.91
1286942--1287004	31	2.1	29	85	11	83	66	6	7	19	1.39
1288340--1288469	39	3.3	38	82	4	143	30	22	30	16	1.96
1291435--1291479	24	1.9	22	82	13	54	20	37	22	20	1.94
1292259--1292431	39	4.4	38	82	4	202	30	24	29	15	1.96
1293350--1293395	2	23.5	2	91	4	76	52	0	0	47	1.00
1293647--1293713	18	3.6	18	82	7	89	29	26	22	20	1.99
1294285--1294424	64	2.2	63	83	10	169	27	15	21	35	1.94
1295410--1295474	7	9.7	7	73	9	55	27	27	26	18	1.98
1295396--1295474	25	3.0	25	79	5	77	27	27	26	17	1.98
1298871--1298937	34	2.0	34	82	11	84	55	1	4	38	1.29
1301665--1301700	10	3.6	10	85	14	56	58	11	0	30	1.33
1301659--1301706	20	2.4	20	96	0	87	60	12	0	27	1.32
1301659--1301703	10	4.6	9	82	17	54	62	13	0	24	1.31
1308001--1308044	22	2.0	21	91	4	70	22	15	27	34	1.95
1308789--1309161	185	2.0	186	93	2	635	47	8	3	40	1.51
1313512--1313582	35	2.0	35	94	0	124	35	9	9	45	1.71
1316825--1316883	27	2.2	27	87	0	82	37	22	11	28	1.89
1330759--1330813	2	27.5	2	96	0	101	47	1	0	50	1.11
1334272--1334316	22	2.0	22	91	0	72	35	2	11	51	1.50
1334493--1334610	61	1.9	61	89	0	182	28	19	25	26	1.99
1334909--1334942	3	10.7	3	87	12	50	32	0	2	64	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1336196--1336379	30	6.2	30	82	3	192	19	12	8	59	1.59
1336205--1336418	60	3.6	59	84	3	216	21	11	8	57	1.60
1336252--1336418	90	1.9	90	82	9	216	22	11	7	58	1.58
1336252--1336418	30	5.6	29	79	8	165	22	11	7	58	1.58
1343343--1343460	61	1.9	61	85	0	164	26	17	28	27	1.98
1344424--1344526	44	2.3	44	83	0	116	29	19	15	35	1.93
1348044--1348088	18	2.4	18	85	10	56	35	15	4	44	1.67
1348919--1348967	23	2.1	23	100	0	98	26	22	20	30	1.98
1351292--1351512	105	2.1	105	87	8	317	41	7	14	36	1.75
1352812--1352927	44	2.6	44	79	0	124	28	20	15	35	1.93

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19