genome.fa.s8103.2.7.7.80.10.50.1000.7.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: VEPZ01008103.1 Hibiscus syriacus cultivar Beakdansim tig00110633_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1996589

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

This is table  7  of  11  ( 1263 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)
1080384--1080428	22	2.0	22	82	0	54	31	26	11	31	1.91
1080317--1080503	93	2.0	94	84	3	243	25	24	17	32	1.97
1083867--1083902	19	2.0	18	89	10	56	33	16	5	44	1.71
1087095--1087200	55	1.9	56	90	3	171	31	16	16	34	1.92
1087075--1087247	51	3.3	53	79	11	169	31	15	17	35	1.91
1093777--1093931	55	2.8	55	84	2	188	32	16	14	36	1.89
1093798--1093954	55	2.9	55	81	5	174	31	15	15	37	1.88
1099157--1099200	18	2.4	18	92	0	79	47	29	4	18	1.68
1100851--1101162	95	3.1	102	79	9	286	32	14	12	40	1.84
1104032--1104071	21	1.9	21	85	10	55	15	10	37	37	1.80
1104184--1104236	20	2.7	20	87	0	79	28	20	32	18	1.97
1104256--1104313	23	2.7	21	78	7	64	22	20	31	25	1.98
1104536--1104575	21	1.9	21	89	0	62	50	10	10	30	1.69
1107512--1107551	21	1.9	22	90	10	66	17	10	35	37	1.83
1107664--1107736	20	3.7	20	96	0	128	32	23	26	17	1.97
1107753--1107855	43	2.4	42	83	10	129	22	17	35	24	1.95
1107753--1107855	21	4.9	21	80	11	129	22	17	35	24	1.95
1109655--1109697	21	2.0	21	95	0	77	11	23	34	30	1.90
1109728--1109771	22	2.0	22	95	0	79	18	15	20	45	1.85
1109981--1110105	63	2.0	63	96	0	232	26	21	16	36	1.94
1112925--1113228	44	7.1	43	84	3	272	53	6	15	24	1.66
1113546--1113575	2	15.0	2	92	0	51	50	3	0	46	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1114673--1114722	22	2.3	22	96	0	91	22	4	12	62	1.46
1118326--1118374	15	3.3	15	74	2	55	40	34	8	16	1.78
1118305--1118374	30	2.4	30	90	7	108	40	34	10	15	1.81
1120887--1120969	27	3.1	27	64	25	68	39	13	10	36	1.79
1120875--1120983	52	2.1	52	96	0	200	40	12	11	35	1.79
1122212--1122269	2	29.0	2	100	0	116	50	0	0	50	1.00
1135105--1135210	8	12.8	8	72	13	63	78	0	11	10	0.97
1135107--1135269	38	4.3	39	69	19	105	74	0	13	11	1.06
1135101--1135274	27	6.0	29	69	17	89	74	0	13	12	1.07
1135166--1135217	10	5.3	9	78	17	50	80	0	3	15	0.85
1135174--1135210	11	3.5	11	88	7	58	83	0	2	13	0.74
1135158--1135217	19	3.2	17	76	19	57	80	0	5	15	0.88
1135227--1135255	8	3.8	8	90	9	51	72	0	13	13	1.13
1135101--1135251	7	21.4	7	71	20	59	75	0	12	11	1.05
1136521--1136606	37	2.3	37	84	9	113	46	15	18	19	1.84
1136605--1137121	165	3.1	163	82	6	530	29	16	22	31	1.96
1136605--1137145	55	9.9	54	80	9	422	29	17	22	30	1.96
1139635--1139694	30	2.0	31	86	3	86	56	8	15	20	1.64
1141168--1141200	15	2.1	16	88	5	50	66	0	3	30	1.06
1141180--1141228	21	2.4	21	80	10	57	65	0	2	32	1.04
1141520--1141786	131	2.0	131	80	3	297	24	16	32	26	1.96
1141856--1141943	30	3.0	29	86	5	113	43	12	18	26	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1141873--1141955	30	2.7	30	84	1	112	43	12	15	28	1.83
1142366--1142477	40	3.1	38	74	18	112	29	13	17	39	1.88
1142331--1142469	36	3.7	36	74	12	111	36	13	16	33	1.88
1142811--1142850	4	10.0	4	84	10	55	22	0	27	50	1.50
1146320--1146364	23	2.0	23	82	8	56	71	6	2	20	1.20
1146795--1146819	5	5.0	5	100	0	50	80	0	0	20	0.72
1147172--1147364	30	6.4	30	74	8	142	57	7	15	19	1.62
1147172--1147364	90	2.1	90	81	6	221	57	7	15	19	1.62
1151519--1151564	19	2.3	20	86	13	69	54	10	17	17	1.70
1153179--1153226	17	2.8	17	84	6	62	52	2	0	45	1.12
1154111--1154141	15	2.1	15	93	0	53	45	0	0	54	0.99
1155224--1155254	15	2.1	15	100	0	62	29	25	0	45	1.54
1155513--1155554	2	21.0	2	95	0	75	47	0	2	50	1.14
1157474--1157595	35	3.4	36	86	6	167	43	18	4	33	1.71
1160288--1160321	16	2.1	16	94	0	59	32	26	8	32	1.87
1160729--1160840	35	3.2	37	88	6	162	43	20	4	31	1.72
1161458--1161513	28	2.0	28	100	0	112	21	25	28	25	1.99
1161719--1161761	21	2.1	21	91	4	70	46	20	18	13	1.83
1168255--1168431	60	2.9	61	80	9	211	32	25	4	37	1.76
1169535--1170113	291	2.0	291	99	0	1149	33	19	17	29	1.94
1170968--1171023	30	1.9	28	86	13	78	60	7	8	23	1.51
1171478--1171529	22	2.4	22	81	12	63	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1184544--1184578	17	2.0	18	88	5	54	34	0	31	34	1.58
1185951--1186992	520	2.0	521	99	0	2077	39	15	19	25	1.91
1190581--1190836	129	2.0	129	97	0	485	38	14	14	33	1.85
1192227--1192326	42	2.4	42	83	5	132	29	22	18	31	1.97
1192219--1193084	259	3.3	259	85	4	1090	33	16	16	33	1.92
1192828--1192866	20	2.0	20	100	0	78	30	25	17	25	1.97
1195173--1195534	179	2.0	178	82	5	437	28	15	15	40	1.87
1198275--1198318	19	2.3	19	92	0	70	50	9	6	34	1.61
1199902--1201400	200	7.5	199	85	3	1867	31	15	14	38	1.87
1203958--1204126	92	1.9	91	93	2	295	47	6	11	34	1.66
1210695--1210873	90	2.0	91	93	1	306	45	6	10	37	1.65
1212397--1212458	6	10.3	6	94	0	79	25	32	1	40	1.66
1212397--1212458	12	5.2	12	94	0	88	25	32	1	40	1.66
1213928--1214728	200	4.0	200	91	2	1275	31	17	15	36	1.91
1213928--1214728	401	2.0	400	91	1	1293	31	17	15	36	1.91
1215176--1215224	19	2.6	19	90	0	80	55	12	0	32	1.37
1216751--1216807	18	3.2	18	94	0	96	7	35	0	57	1.26
1219456--1220117	182	3.7	182	90	1	983	27	16	13	41	1.87
1223606--1223695	26	3.3	26	87	4	117	50	1	4	44	1.29
1223644--1223753	40	2.7	41	84	7	143	46	0	3	49	1.25
1223652--1223788	38	3.5	37	78	10	132	45	2	4	47	1.34
1223871--1223926	7	8.1	7	79	20	57	26	1	0	71	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1223865--1223922	27	2.0	30	83	12	77	27	1	1	68	1.08
1223871--1223926	20	2.7	21	78	13	71	26	1	0	71	0.96
1223873--1223926	24	2.3	23	81	15	65	25	1	0	72	0.95
1225056--1225094	21	1.9	21	89	5	62	20	10	0	69	1.17
1225055--1225100	21	2.2	20	80	3	56	19	8	2	69	1.25
1226089--1226126	17	2.4	16	91	8	60	15	2	0	81	0.80
1228326--1228367	17	2.4	17	88	8	57	16	11	7	64	1.48
1228740--1228807	24	2.8	24	86	0	91	39	26	10	23	1.87
1237358--1237386	14	2.1	14	100	0	58	41	6	6	44	1.58
1237370--1237489	30	3.9	32	67	19	87	40	3	6	50	1.45
1237372--1237502	60	2.3	57	88	10	187	40	4	6	48	1.51
1237410--1237502	26	3.3	26	69	21	78	44	5	6	44	1.52
1237428--1237576	34	4.0	38	75	19	120	43	6	6	43	1.55
1237428--1237576	74	2.0	74	84	5	194	43	6	6	43	1.55
1237600--1237634	18	2.0	17	88	5	52	31	2	5	60	1.35
1237741--1237824	34	2.5	34	90	0	132	27	28	29	14	1.95
1238141--1238174	11	3.0	11	83	8	50	61	26	11	0	1.30
1238141--1238174	12	2.9	12	86	4	52	61	26	11	0	1.30
1238837--1238883	21	2.2	22	84	3	60	23	4	2	70	1.16
1245441--1245474	17	1.9	18	94	5	61	50	0	0	50	1.00
1245440--1245487	15	3.1	16	80	11	55	58	0	0	41	0.98
1245446--1245486	17	2.4	17	83	0	55	60	0	0	39	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1245649--1245678	14	2.1	14	100	0	60	33	20	6	40	1.78
1250843--1251540	225	3.1	223	86	4	961	38	14	15	31	1.88
1251699--1252091	212	1.8	214	92	1	673	31	15	16	36	1.90
1252177--1252203	14	1.9	14	100	0	54	0	0	40	59	0.98
1251912--1252895	282	3.5	280	90	1	1536	32	11	17	39	1.85
1254802--1255734	447	2.1	444	86	4	1285	29	14	15	40	1.86
1260077--1260300	121	1.9	120	82	4	281	35	14	14	35	1.87
1260183--1261391	200	6.1	200	86	2	1547	33	13	13	39	1.84
1260183--1261393	599	2.0	598	86	2	1673	33	13	13	39	1.83
1263983--1264031	19	2.7	18	81	6	62	46	16	0	36	1.47

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