genome.fa.s482.2.7.7.80.10.50.1000.7.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: VEPZ01000482.1 Hibiscus syriacus cultivar Beakdansim tig00000916_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2886609

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

This is table  7  of  16  ( 1801 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)
1154515--1154928	15	26.7	15	71	14	155	17	6	0	75	1.05
1154480--1154910	35	12.4	34	72	19	149	18	6	0	74	1.05
1154525--1154940	23	20.0	20	71	20	160	18	6	0	74	1.07
1154482--1154887	52	8.0	49	73	20	254	19	5	0	74	1.04
1154482--1154938	58	8.1	55	73	16	257	18	6	0	74	1.06
1154482--1154869	4	93.8	4	72	19	180	19	5	0	74	1.05
1154562--1154906	9	37.1	10	70	23	122	19	6	0	73	1.07
1154566--1154922	29	12.0	30	70	22	104	18	6	0	74	1.07
1154649--1154946	20	14.8	19	71	20	69	18	7	0	73	1.07
1155827--1155939	60	1.9	60	83	3	147	31	15	16	36	1.90
1159831--1159860	2	15.0	2	100	0	60	50	0	0	50	1.00
1159999--1160077	28	2.8	28	98	0	149	35	29	21	13	1.92
1175227--1175278	18	2.9	18	100	0	104	26	34	23	15	1.94
1175261--1175341	28	2.9	28	88	0	126	35	28	19	16	1.93
1177162--1177215	23	2.4	22	84	12	65	31	16	0	51	1.45
1177474--1177552	21	3.7	21	85	6	104	32	30	17	18	1.95
1177558--1177653	21	4.6	21	68	0	57	40	19	15	23	1.90
1184528--1184561	10	3.4	10	87	0	50	35	32	2	29	1.73
1184771--1184843	39	1.9	37	83	10	94	30	0	8	61	1.25
1186820--1186894	35	2.1	35	92	0	123	33	29	28	9	1.88
1186972--1187046	24	3.2	24	88	1	116	36	21	17	25	1.95
1186976--1187052	23	3.3	23	85	3	109	36	20	18	24	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1188206--1188246	18	2.3	18	86	0	55	26	17	2	53	1.56
1189552--1189590	7	5.4	7	93	6	69	25	28	33	12	1.93
1189552--1189606	15	3.9	15	90	6	80	21	27	36	14	1.93
1189588--1189651	18	3.6	18	97	0	119	7	23	51	17	1.71
1189567--1189611	13	3.3	13	90	6	63	17	24	42	15	1.88
1191677--1191751	35	2.1	35	92	0	123	33	29	28	9	1.88
1191829--1191903	24	3.2	24	88	1	116	36	21	17	25	1.95
1191833--1191909	23	3.3	23	85	3	109	36	20	18	24	1.95
1193062--1193102	18	2.3	18	86	0	55	26	17	2	53	1.56
1194407--1194445	7	5.4	7	93	6	69	25	28	33	12	1.93
1194407--1194461	15	3.9	15	90	6	80	21	27	36	14	1.93
1194443--1194506	18	3.6	18	97	0	119	7	23	51	17	1.71
1194422--1194466	13	3.3	13	90	6	63	17	24	42	15	1.88
1195347--1195401	3	18.3	3	80	0	65	32	1	32	32	1.69
1195349--1195403	21	2.6	21	88	0	74	36	1	30	30	1.68
1198246--1198280	7	5.0	7	92	0	61	0	31	0	68	0.90
1198261--1198359	39	2.5	41	86	9	150	10	41	2	46	1.49
1198342--1198615	3	92.0	3	91	8	454	0	33	0	66	0.92
1199441--1199501	3	19.3	3	73	9	50	59	0	32	8	1.27
1199441--1199501	21	3.1	19	74	19	61	59	0	32	8	1.27
1209321--1209395	2	38.5	2	94	5	136	49	0	0	50	1.00
1210360--1210574	30	7.2	30	68	11	111	57	12	12	18	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1212245--1212485	120	2.0	120	90	1	376	26	18	17	37	1.93
1212568--1212741	61	2.7	63	83	8	199	25	13	20	40	1.89
1213938--1213968	2	15.5	2	100	0	62	48	0	0	51	1.00
1216367--1216409	18	2.5	17	85	7	61	67	2	4	25	1.22
1216766--1216870	37	2.8	37	85	0	138	29	14	14	41	1.85
1217412--1217833	105	4.0	106	87	4	581	21	18	26	33	1.96
1218033--1218108	36	2.1	36	90	0	116	40	15	21	22	1.90
1218008--1218327	106	3.1	104	90	4	488	36	12	20	30	1.89
1218230--1218304	39	1.9	39	83	5	98	37	12	24	26	1.90
1218455--1218569	36	3.2	36	75	4	117	44	9	17	28	1.80
1218398--1218572	72	2.4	73	83	10	205	42	12	17	28	1.85
1219714--1220246	183	2.9	183	96	0	969	30	21	20	27	1.98
1224209--1224262	23	2.4	21	82	14	56	70	1	12	14	1.25
1224540--1224629	44	2.0	47	80	10	107	58	1	6	33	1.31
1224662--1224705	17	2.5	19	85	14	67	68	2	4	25	1.20
1225062--1225166	37	2.8	37	83	0	129	30	13	14	41	1.84
1229921--1229960	2	20.0	2	94	0	71	47	0	0	52	1.00
1234972--1235085	51	2.3	51	89	1	167	17	29	29	22	1.97
1235289--1235332	18	2.5	17	85	10	61	34	2	2	61	1.21
1235404--1235617	111	1.9	111	97	0	401	37	7	10	44	1.67
1237660--1237732	25	3.0	24	68	24	62	26	6	4	63	1.38
1241226--1241257	10	2.8	12	81	18	50	40	0	50	9	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1241234--1241259	10	2.6	10	100	0	52	38	0	50	11	1.39
1241226--1241264	12	3.5	11	86	13	53	38	0	48	12	1.42
1242921--1243003	41	2.0	41	97	0	157	26	9	26	37	1.87
1252579--1252634	23	2.5	22	88	8	87	21	42	17	17	1.89
1253672--1253708	18	2.1	18	94	0	65	37	8	16	37	1.78
1254187--1254230	21	2.1	21	82	0	52	29	13	13	43	1.83
1254634--1254676	20	2.2	20	95	0	77	62	6	0	30	1.21
1257769--1257896	18	7.4	18	71	18	76	3	22	0	73	1.00
1257769--1257873	10	10.6	10	66	25	55	3	21	0	74	0.98
1257778--1257880	30	3.6	29	73	18	90	3	22	0	73	0.99
1257840--1257893	22	2.4	22	82	11	65	1	20	0	77	0.86
1258062--1258174	40	2.8	40	81	6	133	28	13	38	20	1.90
1259452--1259507	25	2.2	25	81	12	62	30	23	21	25	1.99
1260275--1260401	22	5.8	22	90	0	209	27	29	25	18	1.98
1260949--1261093	65	2.2	67	80	9	156	26	22	20	31	1.98
1266705--1266792	45	1.9	47	81	9	110	38	5	22	32	1.78
1267939--1268000	27	2.3	27	100	0	124	19	22	29	29	1.98
1268029--1268079	19	2.7	19	85	8	70	25	15	35	23	1.94
1267966--1268130	65	2.6	63	77	17	160	26	16	26	30	1.97
1268298--1268337	20	2.0	21	85	14	57	45	7	5	42	1.54
1275737--1275774	19	2.0	20	94	5	69	18	21	28	31	1.97
1275694--1275856	65	2.5	65	83	6	208	28	15	25	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1275804--1275854	19	2.7	19	79	8	61	27	15	33	23	1.95
1275673--1275856	64	2.9	64	82	6	203	27	16	25	29	1.97
1276073--1276112	20	2.0	21	85	14	57	45	7	5	42	1.54
1276180--1276237	30	1.9	30	100	0	116	25	20	24	29	1.99
1279081--1279185	22	4.8	22	90	0	165	30	29	24	15	1.95
1281238--1281278	19	2.2	19	95	0	73	29	4	26	39	1.77
1281643--1281689	24	1.9	25	91	4	78	42	0	6	51	1.27
1283173--1283211	19	2.1	19	95	0	69	33	28	20	17	1.96
1295190--1295229	21	1.9	21	85	10	55	25	15	27	32	1.95
1298232--1298278	20	2.3	21	82	14	62	48	27	10	12	1.74
1303408--1303432	2	12.5	2	100	0	50	48	0	0	52	1.00
1307405--1307447	22	2.0	22	86	4	61	39	27	13	18	1.89
1309892--1309935	21	2.0	21	86	4	61	25	31	25	18	1.97
1310665--1310730	24	2.8	24	86	2	98	27	25	25	21	1.99
1311895--1311928	15	2.3	15	89	0	50	8	20	14	55	1.65
1319064--1319091	14	2.0	14	100	0	56	42	0	7	50	1.30
1319397--1319433	17	2.2	17	90	0	56	13	37	24	24	1.91
1319405--1319438	17	2.0	17	88	0	50	17	35	17	29	1.93
1320470--1320549	34	2.3	34	80	2	97	46	13	15	25	1.82
1321870--1322401	40	13.1	40	75	6	469	34	13	12	39	1.82
1322194--1322440	125	2.0	126	91	0	406	35	13	13	37	1.85
1327465--1327523	2	29.5	2	100	0	118	50	0	0	49	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1332345--1332371	2	13.5	2	100	0	54	48	0	0	51	1.00
1334489--1334528	20	2.0	20	85	0	53	20	17	0	62	1.33
1335523--1335575	26	2.1	25	89	3	79	39	13	3	43	1.62
1340612--1340664	22	2.4	22	83	3	70	32	18	24	24	1.97
1347435--1347485	22	2.3	22	86	3	75	29	19	25	25	1.99
1352251--1352284	17	2.1	16	88	5	50	44	8	0	47	1.34
1355674--1355728	24	2.3	24	96	3	103	18	20	38	23	1.93
1357045--1357129	40	2.1	40	86	4	118	35	23	16	24	1.95
1368063--1368102	21	1.9	21	85	10	55	35	10	2	52	1.48
1370953--1371103	21	7.8	20	75	12	109	22	18	32	26	1.97

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