genome.fa.s8217.2.7.7.80.10.50.1000.7.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: VEPZ01008217.1 Hibiscus syriacus cultivar Beakdansim tig00110847_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2417150

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

This is table  7  of  14  ( 1575 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)
1100854--1100889	18	2.1	18	89	5	56	66	2	5	25	1.27
1106862--1106919	23	2.7	22	84	10	75	24	32	24	18	1.97
1110426--1110732	106	2.9	106	89	3	456	23	18	24	33	1.97
1118620--1118699	40	2.0	40	88	4	119	58	7	2	31	1.39
1119111--1119235	2	64.5	2	72	15	75	56	1	2	39	1.22
1119117--1119292	90	1.9	92	97	2	338	58	2	3	35	1.27
1119697--1119763	35	1.9	35	93	0	116	32	14	10	41	1.80
1127763--1128230	36	12.8	36	76	12	352	45	6	7	40	1.58
1127909--1127972	25	2.5	24	85	14	85	43	6	9	40	1.62
1127932--1128236	39	7.9	38	84	5	348	45	6	8	40	1.60
1128201--1128256	25	2.2	26	84	9	71	41	1	7	50	1.40
1128256--1128307	3	17.0	3	77	18	54	32	0	0	67	0.91
1128241--1128309	20	3.4	20	76	11	70	33	0	1	65	1.02
1128239--1128312	30	2.6	28	84	4	85	32	0	1	66	1.00
1128256--1128317	20	3.1	20	75	13	56	30	0	1	67	1.00
1129440--1129488	5	9.8	5	100	0	98	0	0	18	81	0.69
1131540--1131578	19	2.1	19	90	0	60	20	35	15	28	1.93
1131528--1131687	64	2.5	63	81	6	189	28	26	15	28	1.96
1131656--1131704	19	2.6	19	84	9	57	24	30	18	26	1.98
1137404--1137483	24	3.5	23	77	14	94	22	25	23	28	1.99
1139398--1139441	23	1.9	23	85	0	61	29	4	15	50	1.64
1140022--1140061	21	1.9	21	94	0	71	32	25	15	27	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1140087--1140125	19	2.1	19	95	0	69	20	38	15	25	1.92
1140022--1140228	64	3.2	63	80	7	202	31	24	15	27	1.96
1142019--1142080	31	2.0	31	100	0	124	35	22	12	29	1.91
1142362--1142438	22	3.5	22	94	0	136	35	12	11	40	1.80
1142951--1143036	20	4.3	20	90	0	136	25	15	20	38	1.92
1142951--1143036	40	2.2	40	95	0	154	25	15	20	38	1.92
1143705--1143731	14	1.9	14	100	0	54	44	3	0	51	1.19
1143707--1143760	17	3.1	17	79	15	56	46	1	0	51	1.11
1143702--1143757	14	3.7	15	77	15	53	48	3	0	48	1.19
1146583--1146618	14	2.6	14	100	0	72	5	41	5	47	1.50
1146783--1146918	68	2.0	68	100	0	272	45	5	19	29	1.73
1147631--1147743	51	2.2	51	89	6	167	15	34	30	18	1.93
1147631--1147757	51	2.5	51	81	11	161	17	33	29	18	1.94
1147867--1147901	10	3.5	10	85	14	54	34	25	0	40	1.56
1147870--1147908	10	3.6	12	80	19	50	28	25	0	46	1.53
1151612--1151652	19	2.2	19	91	4	66	21	21	17	39	1.93
1153834--1153957	49	2.5	51	86	5	173	26	24	23	25	2.00
1153989--1154095	51	2.1	50	84	5	135	21	31	29	16	1.96
1158112--1158221	55	2.0	55	100	0	220	21	14	18	45	1.85
1163258--1163313	14	3.9	14	81	9	51	25	32	19	23	1.98
1163267--1163313	14	3.3	14	84	3	58	23	29	21	25	1.99
1166606--1166803	105	1.9	105	81	6	240	32	20	11	35	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1167386--1167792	59	6.9	59	91	1	627	31	20	12	36	1.89
1168114--1168169	22	2.7	20	86	10	85	23	30	14	32	1.94
1168360--1168415	22	2.7	20	86	10	85	26	30	12	30	1.93
1168360--1168580	94	2.4	94	89	1	318	26	24	14	33	1.95
1173729--1173794	28	2.3	29	76	10	73	22	9	9	59	1.56
1174941--1174966	7	3.7	7	100	0	52	23	0	0	76	0.78
1179365--1179395	7	4.4	7	91	0	53	41	0	0	58	0.98
1179522--1179551	15	1.9	16	93	6	53	63	0	0	36	0.95
1180303--1180349	20	2.3	21	78	14	53	6	8	14	70	1.32
1180429--1180463	18	1.9	18	94	0	61	20	22	22	34	1.97
1191406--1191748	170	2.0	170	100	0	686	29	13	16	40	1.87
1221215--1221274	21	3.1	20	77	13	63	41	3	3	51	1.35
1225227--1225273	23	2.0	23	87	4	67	34	25	14	25	1.94
1225891--1225971	24	3.5	24	81	6	98	22	24	18	34	1.96
1227314--1227406	46	2.0	47	81	10	111	35	12	16	35	1.87
1231653--1231697	12	3.1	15	78	21	60	35	24	0	40	1.56
1231662--1231693	12	2.7	12	100	0	64	34	25	0	40	1.56
1231809--1231966	62	2.6	61	82	4	183	30	18	16	34	1.94
1232085--1232192	47	2.3	47	90	0	162	33	14	19	32	1.92
1232163--1233025	36	23.8	36	84	4	979	36	19	22	21	1.95
1232677--1233062	187	2.1	188	88	2	571	37	18	22	21	1.94
1233190--1233235	3	15.7	3	78	13	51	36	0	0	63	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1233196--1233228	11	3.1	11	91	4	50	39	0	0	60	0.97
1233924--1233948	2	12.5	2	100	0	50	52	0	0	48	1.00
1238450--1238514	23	2.8	23	75	13	71	32	23	24	20	1.98
1238517--1238563	23	2.0	24	91	4	78	46	21	10	21	1.81
1241131--1241164	16	2.1	17	94	5	61	32	5	26	35	1.81
1241914--1241946	15	2.1	16	88	5	50	51	15	24	9	1.72
1249142--1249180	18	2.2	18	85	0	51	33	0	0	66	0.92
1249117--1249172	13	4.1	13	73	17	51	30	0	0	69	0.89
1249144--1249196	20	2.6	20	83	16	65	35	3	0	60	1.15
1249226--1249267	2	21.0	2	100	0	84	50	0	0	50	1.00
1249670--1249703	18	1.9	18	88	5	52	26	29	26	17	1.98
1249941--1249971	16	1.9	16	100	0	62	51	19	9	19	1.74
1251390--1251416	14	1.9	14	100	0	54	14	0	25	59	1.36
1252392--1252440	15	3.3	15	100	0	98	32	18	0	48	1.48
1264002--1264040	20	2.0	20	89	0	60	28	7	5	58	1.47
1265265--1265300	17	2.2	16	90	5	54	30	0	5	63	1.17
1269771--1269831	28	2.2	28	87	0	86	31	14	36	18	1.91
1270122--1270191	32	2.2	32	86	0	95	21	18	22	37	1.94
1270154--1271164	133	7.6	133	85	3	1295	30	19	20	30	1.97
1270209--1270943	44	16.6	44	65	6	205	29	19	20	30	1.97
1270154--1271164	263	3.8	263	85	4	1252	30	19	20	30	1.97
1271164--1271517	91	3.9	91	88	1	514	28	21	13	36	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1271955--1272112	67	2.4	66	83	7	178	39	15	20	23	1.91
1271918--1272112	66	2.9	67	79	8	220	37	14	22	26	1.92
1272229--1272338	37	3.0	37	83	1	141	44	10	14	30	1.79
1272377--1272864	90	5.4	90	89	0	715	37	19	17	26	1.93
1272377--1272864	181	2.7	181	89	0	737	37	19	17	26	1.93
1274848--1274876	15	1.9	15	100	0	58	17	0	0	82	0.66
1274839--1274888	11	4.7	10	85	9	55	10	4	0	86	0.71
1275302--1275348	3	15.7	3	95	0	85	2	31	0	65	1.04
1276130--1276166	15	2.5	15	90	0	65	45	13	27	13	1.81
1280048--1280101	28	1.9	28	88	0	81	35	14	35	14	1.88
1283427--1283560	67	2.0	67	100	0	268	14	17	31	35	1.91
1287083--1287222	20	7.0	19	77	13	122	40	22	17	20	1.92
1287062--1287222	40	4.0	40	73	19	140	39	21	17	21	1.92
1287062--1287222	80	2.0	80	86	2	225	39	21	17	21	1.92
1287700--1287801	20	5.2	20	95	1	170	13	19	18	48	1.81
1289905--1290003	21	4.7	21	74	9	85	24	33	20	22	1.97
1289905--1290023	42	2.8	42	78	5	123	22	34	21	21	1.97
1291381--1291520	66	2.2	62	87	7	194	30	0	17	50	1.51
1291637--1291688	20	2.6	20	93	0	86	15	17	26	40	1.89
1291637--1291696	20	3.0	19	85	9	75	16	18	25	40	1.91
1291909--1291995	39	2.2	39	93	0	147	18	14	19	47	1.83
1292306--1292342	18	2.1	18	89	0	56	51	10	8	29	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1292825--1292897	20	4.0	20	67	20	68	17	23	23	35	1.95
1293185--1293220	18	2.0	18	94	0	63	16	2	25	55	1.55
1296429--1296518	19	4.7	19	78	5	83	21	14	23	41	1.89
1296430--1296539	19	5.6	19	75	11	80	20	14	24	40	1.90
1296443--1296539	39	2.5	40	81	10	119	18	15	24	41	1.89
1297508--1297559	19	2.5	20	74	25	54	34	3	3	57	1.35
1298816--1298891	11	6.6	11	73	19	66	25	21	26	27	1.99
1298815--1298877	24	2.7	23	90	2	90	23	20	28	26	1.99
1301848--1301877	14	2.1	14	93	0	51	43	0	6	50	1.28
1302958--1303062	53	2.0	53	100	0	210	28	11	25	34	1.91

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