genome.fa.s8772.2.7.7.80.10.50.1000.6.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: VEPZ01008772.1 Hibiscus syriacus cultivar Beakdansim tig00111877_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3098974

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

This is table  6  of  16  ( 1817 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)
1039072--1039144	30	2.4	30	95	0	128	24	20	24	30	1.99
1040229--1040258	11	2.7	11	100	0	60	60	10	30	0	1.30
1041273--1041417	74	1.9	75	95	1	265	38	10	10	40	1.74
1043538--1043567	15	2.0	15	93	0	51	20	10	13	56	1.65
1045550--1045591	18	2.3	18	95	0	75	21	16	4	57	1.58
1051912--1051982	28	2.5	29	77	9	83	45	1	2	50	1.25
1053009--1053060	2	26.0	2	100	0	104	50	0	0	50	1.00
1056361--1056713	174	2.0	175	99	0	699	33	19	16	30	1.94
1059608--1059737	65	2.0	65	100	0	260	21	27	27	23	1.99
1067992--1068029	20	1.9	20	94	0	67	31	34	15	18	1.92
1067992--1068199	65	3.2	64	82	9	235	31	23	18	26	1.97
1069655--1069753	21	4.7	21	80	13	123	25	15	34	25	1.94
1069824--1069890	30	2.3	30	84	2	82	49	17	4	28	1.66
1071441--1071471	14	2.3	14	94	5	55	6	32	0	61	1.21
1072881--1072942	12	5.8	12	72	27	68	24	24	32	19	1.98
1072874--1072988	20	5.7	20	93	2	185	27	21	30	20	1.98
1073009--1073067	20	2.8	20	82	12	66	27	13	28	30	1.94
1073051--1073114	8	8.8	8	72	19	59	25	15	37	21	1.93
1073008--1073107	21	4.8	21	80	12	107	26	15	33	26	1.95
1073199--1073258	30	2.0	30	93	0	102	45	21	5	28	1.73
1078135--1078175	17	2.4	17	100	0	82	53	4	9	31	1.55
1078352--1078430	23	3.6	23	74	8	92	25	25	22	26	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1078350--1078451	44	2.4	41	76	10	114	26	26	22	24	2.00
1079045--1079119	37	2.0	37	97	0	141	22	18	17	41	1.90
1080374--1080411	20	1.9	20	94	0	67	31	34	15	18	1.92
1080439--1080562	64	1.9	65	85	4	171	28	20	20	29	1.98
1080502--1080609	45	2.4	45	93	0	180	26	25	16	31	1.97
1080579--1080627	19	2.6	19	84	9	57	24	30	18	26	1.98
1080424--1080627	109	1.9	110	84	5	279	27	22	19	30	1.98
1082026--1082070	17	2.6	17	75	0	54	42	0	0	57	0.98
1086836--1086905	20	3.6	19	92	5	106	35	10	20	34	1.86
1086881--1086926	23	2.1	22	84	8	58	36	8	19	34	1.83
1086977--1087030	21	2.6	21	96	0	99	35	18	20	25	1.95
1089719--1089966	123	2.0	123	99	0	487	41	6	18	33	1.77
1091412--1091490	28	3.0	25	79	17	88	27	2	3	65	1.22
1091444--1091485	16	2.6	16	85	11	59	30	2	0	66	1.04
1091444--1091489	15	2.9	16	84	12	60	28	2	0	69	1.00
1093733--1093820	34	2.6	33	82	10	106	22	2	11	63	1.38
1098139--1098174	17	2.1	17	90	10	56	44	5	11	38	1.63
1100817--1100867	2	25.5	2	100	0	102	49	0	0	50	1.00
1108230--1108269	21	1.9	21	89	0	62	25	40	25	10	1.86
1117274--1117357	39	2.2	39	82	4	98	39	20	20	20	1.93
1120165--1120216	27	1.9	27	88	0	77	40	17	1	40	1.60
1122995--1123033	16	2.4	16	91	4	60	46	2	7	43	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1123139--1123237	47	2.1	47	84	3	128	42	9	6	42	1.61
1123824--1123899	28	2.7	28	91	4	118	43	7	3	44	1.51
1124184--1124293	39	2.9	38	79	2	123	23	25	22	28	2.00
1124812--1124870	22	2.8	21	76	5	66	66	0	6	27	1.17
1130462--1130522	31	2.0	30	87	9	88	22	6	3	67	1.29
1133651--1133854	93	2.2	92	80	5	225	31	21	8	37	1.84
1133822--1133887	30	2.2	30	89	5	98	28	24	15	31	1.95
1133852--1134040	91	2.1	91	84	3	245	29	21	10	39	1.86
1135421--1135550	62	2.1	62	91	0	215	40	10	13	34	1.80
1135579--1135784	106	1.9	106	98	0	394	28	24	10	37	1.88
1136912--1136947	2	18.0	2	100	0	72	50	0	0	50	1.00
1139033--1139095	32	2.0	32	100	0	126	34	6	15	42	1.73
1139941--1139984	17	2.6	17	100	0	88	22	36	22	18	1.95
1139941--1139984	11	3.9	11	80	16	54	22	36	22	18	1.95
1140404--1140512	31	3.6	32	76	15	115	40	20	17	22	1.91
1140405--1140493	27	3.1	29	77	14	94	40	17	17	23	1.91
1140405--1140524	58	2.1	58	88	0	177	42	18	15	23	1.88
1140429--1140522	29	3.2	29	72	21	88	42	18	13	25	1.87
1155156--1155212	23	2.5	23	91	0	87	26	26	26	21	1.99
1155239--1155449	103	2.0	103	96	0	386	36	24	12	26	1.91
1157130--1157174	21	2.1	21	87	0	63	15	24	28	31	1.96
1160373--1160435	23	2.7	23	85	4	65	34	25	19	20	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1160457--1160674	103	2.1	103	96	0	400	36	23	13	26	1.92
1161856--1161900	21	2.1	21	87	0	63	15	24	28	31	1.96
1163288--1163360	23	3.3	23	86	3	105	32	23	20	23	1.98
1163379--1163589	103	2.0	103	97	1	397	36	23	13	26	1.92
1165257--1165301	21	2.1	21	91	0	72	17	24	26	31	1.97
1166552--1166603	25	2.1	25	96	0	95	26	11	15	46	1.80
1170839--1170947	27	4.1	27	95	2	202	46	3	4	44	1.41
1170839--1170947	53	2.0	54	96	1	202	46	3	4	44	1.41
1171001--1171052	16	3.2	17	75	10	63	36	1	3	57	1.28
1174388--1174432	3	15.0	3	100	0	90	66	0	0	33	0.92
1177186--1177225	19	2.2	18	86	4	53	15	32	32	20	1.93
1182233--1182289	25	2.3	25	96	0	105	21	12	28	38	1.89
1191381--1191419	20	2.0	20	85	9	55	25	23	30	20	1.98
1191529--1191585	23	2.5	23	97	0	105	17	21	42	19	1.90
1192935--1193083	62	2.4	62	80	6	149	42	4	16	36	1.67
1193673--1193725	21	2.5	21	87	6	72	28	7	20	43	1.79
1194758--1194822	2	32.5	2	100	0	130	49	0	0	50	1.00
1196032--1196104	23	3.2	23	92	0	119	34	5	21	38	1.77
1196521--1196593	23	3.2	23	92	0	119	34	5	21	38	1.77
1196998--1197070	23	3.2	23	92	0	119	34	5	21	38	1.77
1197476--1197548	23	3.2	23	92	0	119	34	5	21	38	1.77
1195608--1197938	478	4.8	478	95	1	4017	41	7	10	40	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1195608--1197938	955	2.4	959	94	2	4059	41	7	10	40	1.67
1198044--1198086	22	1.9	23	85	4	61	46	11	4	37	1.61
1198664--1198705	18	2.3	18	100	0	84	14	30	21	33	1.93
1202672--1202722	21	2.4	21	84	12	61	21	7	1	68	1.25
1206665--1207014	183	1.9	183	95	0	637	27	20	22	29	1.98
1208301--1208387	37	2.4	37	88	1	122	25	20	13	40	1.89
1208212--1208516	102	3.0	102	94	1	504	30	19	13	37	1.89
1208403--1208488	36	2.4	36	86	3	111	25	18	13	41	1.88
1208471--1208529	30	2.0	30	86	6	84	40	16	10	32	1.82
1208543--1208657	36	3.1	36	82	4	158	28	20	11	40	1.87
1208698--1208813	34	3.4	34	89	5	166	37	18	11	31	1.87
1208768--1208953	67	2.7	67	86	1	255	28	21	12	37	1.90
1209272--1209503	106	2.2	106	87	1	331	34	26	17	21	1.95
1210787--1210813	2	13.5	2	100	0	54	48	0	0	51	1.00
1210986--1211026	20	2.1	20	86	13	59	21	7	0	70	1.11
1212940--1213234	98	3.0	98	98	0	572	49	13	4	33	1.61
1214791--1214815	12	2.1	12	100	0	50	52	8	8	32	1.60
1215197--1215255	28	2.1	29	80	3	66	50	8	1	38	1.43
1224369--1224422	15	3.7	15	70	22	51	29	20	0	50	1.49
1226945--1227102	81	2.0	81	93	6	281	44	7	8	38	1.64
1229291--1229352	31	2.0	31	81	6	72	35	16	19	29	1.93
1230569--1230628	23	2.6	23	94	0	102	28	33	20	18	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1232995--1233047	21	2.5	21	87	0	79	20	24	18	35	1.95
1233037--1233123	20	4.3	20	82	2	120	37	20	20	20	1.94
1233117--1233203	20	4.3	20	98	0	156	33	25	19	21	1.97
1234017--1234070	24	2.2	24	93	0	90	20	18	20	40	1.91
1234238--1234267	3	10.0	3	100	0	60	66	0	33	0	0.92
1236498--1236566	20	3.5	19	84	7	84	36	21	21	20	1.95
1236743--1236779	14	2.6	14	86	0	56	48	21	0	29	1.50
1238159--1238270	42	2.7	42	75	8	104	24	17	37	20	1.94
1238750--1238858	20	5.4	20	93	0	137	37	22	18	21	1.94
1238903--1238949	20	2.3	20	92	0	76	19	19	21	40	1.92

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