genome.fa.s8007.2.7.7.80.10.50.1000.7.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: VEPZ01008007.1 Hibiscus syriacus cultivar Beakdansim tig00110469_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1953294

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

This is table  7  of  11  ( 1251 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)
1073665--1073917	85	3.0	85	79	3	233	26	15	20	37	1.93
1079512--1079543	16	1.9	17	93	6	57	43	9	6	40	1.62
1082342--1082387	2	23.0	2	100	0	92	50	0	0	50	1.00
1086609--1086637	15	1.9	15	100	0	58	34	0	10	55	1.34
1086593--1086704	60	1.9	59	94	1	197	38	3	9	48	1.54
1086653--1086697	21	2.1	22	84	12	58	40	2	6	51	1.41
1086688--1086779	24	3.8	24	82	5	114	48	2	6	42	1.41
1086733--1086783	11	4.5	11	83	9	66	49	1	5	43	1.38
1086813--1086851	16	2.4	16	91	0	60	41	5	10	43	1.61
1086880--1086919	17	2.5	15	88	8	53	45	0	2	52	1.14
1090132--1090207	29	2.6	29	93	0	125	13	40	25	21	1.89
1090240--1090317	32	2.4	33	93	4	133	28	48	12	10	1.74
1090300--1090382	29	2.9	29	81	0	94	21	38	24	15	1.92
1090666--1090723	26	2.3	26	87	3	82	50	8	32	8	1.64
1090682--1090731	25	2.0	26	84	4	66	54	10	28	8	1.62
1090717--1090758	19	2.4	18	81	14	52	64	0	35	0	0.94
1090870--1090910	22	1.9	21	85	5	55	26	0	19	53	1.45
1090921--1091046	40	3.1	39	69	18	103	40	0	12	46	1.48
1091212--1091258	16	3.0	16	84	9	53	29	0	10	59	1.31
1091233--1091263	15	2.1	14	94	5	53	38	0	6	54	1.26
1093475--1093522	14	3.6	14	78	16	57	47	18	0	33	1.49
1093499--1093644	21	6.8	21	66	20	70	50	9	0	40	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1093494--1093617	48	2.6	48	85	8	164	48	10	0	41	1.38
1093636--1093720	21	4.2	21	65	14	52	43	11	1	43	1.48
1093767--1093813	24	1.9	24	87	12	69	38	12	0	48	1.41
1093549--1093796	60	4.1	60	94	2	435	45	11	0	41	1.44
1093869--1093917	25	2.0	25	95	0	89	46	14	0	38	1.44
1093870--1093918	14	3.7	14	81	15	68	48	14	0	36	1.44
1093869--1093927	25	2.6	22	86	10	75	49	11	0	38	1.40
1093869--1093938	21	3.1	22	82	12	72	50	10	0	40	1.36
1093885--1094021	58	2.3	60	91	3	224	47	11	0	40	1.40
1093938--1093964	10	2.7	10	100	0	54	40	18	0	40	1.51
1094088--1094135	14	3.6	14	81	16	66	47	16	0	35	1.47
1094087--1094135	25	2.0	25	95	0	89	46	16	0	36	1.47
1094087--1094145	25	2.6	22	86	10	75	49	13	0	37	1.43
1094103--1094355	60	4.2	60	93	1	438	46	12	0	40	1.42
1094156--1094182	10	2.7	10	100	0	54	40	18	0	40	1.51
1093658--1094239	218	2.6	219	95	3	1015	44	12	3	40	1.59
1094357--1094388	10	3.2	10	90	0	55	56	9	9	25	1.61
1097860--1097916	28	2.2	25	90	9	87	56	15	0	28	1.40
1097866--1097920	28	2.0	27	96	3	101	56	18	0	25	1.42
1098428--1098502	29	2.6	29	82	0	78	16	25	37	21	1.93
1125002--1125052	14	3.6	14	73	7	50	29	1	15	52	1.54
1137180--1137222	22	2.0	22	81	9	52	51	9	0	39	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1141850--1141956	40	2.5	42	76	10	112	37	20	17	24	1.94
1141987--1142091	42	2.6	41	79	10	124	40	18	15	26	1.90
1142222--1142598	200	1.9	200	96	0	691	27	14	16	41	1.87
1145092--1145536	84	5.3	84	82	3	455	22	22	18	35	1.95
1145092--1145466	169	2.2	169	83	2	450	22	22	18	36	1.95
1145092--1145540	169	2.7	170	79	4	435	22	22	18	36	1.95
1145092--1145536	42	10.5	42	81	4	405	22	22	18	35	1.95
1145092--1145536	85	5.3	86	80	5	408	22	22	18	35	1.95
1146842--1146901	22	2.7	22	86	0	84	26	26	11	35	1.91
1149150--1149277	31	4.1	31	77	6	132	32	22	16	28	1.96
1149151--1149274	63	2.0	62	87	4	178	31	22	16	29	1.96
1152007--1152106	31	3.2	30	73	14	87	15	27	30	28	1.96
1152397--1152492	34	2.7	34	91	4	147	35	14	22	27	1.93
1153807--1154034	2	115.5	2	70	17	129	50	2	2	44	1.30
1153841--1153960	15	7.9	15	75	14	86	48	5	3	43	1.41
1154162--1154206	13	3.5	13	90	0	72	33	22	13	31	1.92
1154550--1154646	41	2.4	41	94	1	169	41	16	19	22	1.90
1159090--1159120	9	3.4	9	100	0	62	54	9	0	35	1.33
1159189--1159233	14	3.2	14	77	0	54	48	31	0	20	1.49
1159396--1159428	2	16.0	2	93	6	57	48	3	0	48	1.17
1159503--1159599	7	14.6	7	76	4	69	45	31	2	20	1.63
1159557--1159605	13	3.9	12	87	10	71	51	32	0	16	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1159557--1159605	19	2.6	19	96	0	89	51	32	0	16	1.45
1159557--1159605	6	7.8	6	88	8	71	51	32	0	16	1.45
1159614--1159658	24	1.9	23	86	4	63	44	8	8	37	1.67
1159682--1159784	20	5.1	19	76	17	84	39	8	8	42	1.67
1159707--1159752	18	2.8	16	83	12	58	43	6	8	41	1.61
1159831--1159883	21	2.5	21	81	0	70	37	7	7	47	1.60
1159901--1160110	65	3.3	64	77	15	202	42	4	3	48	1.42
1159955--1160016	14	4.4	14	75	18	56	46	6	1	45	1.38
1160034--1160152	6	19.3	6	72	15	59	47	1	2	48	1.25
1159859--1160066	65	3.2	65	76	15	203	40	5	5	48	1.48
1159859--1160131	129	2.1	133	81	11	325	43	4	4	48	1.41
1160064--1160143	16	4.6	17	74	22	78	50	1	0	48	1.08
1160067--1160154	12	7.0	12	75	19	74	50	1	1	47	1.16
1160868--1160895	12	2.3	12	100	0	56	42	28	7	21	1.79
1161162--1161194	17	1.9	17	100	0	66	15	6	18	60	1.54
1161179--1161398	102	2.2	101	90	1	334	21	7	18	53	1.68
1162670--1163061	195	2.0	196	97	0	741	27	13	18	41	1.87
1163311--1163364	23	2.3	24	81	6	58	38	5	1	53	1.35
1163433--1163479	14	3.7	14	71	26	50	51	4	0	44	1.21
1163431--1163480	23	2.1	24	96	3	93	48	4	0	48	1.20
1163738--1163793	16	3.5	16	80	0	58	44	8	23	23	1.81
1163765--1163800	16	2.2	16	90	0	54	47	5	25	22	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1167619--1167653	16	2.2	16	89	0	52	77	2	2	17	1.02
1167631--1167719	38	2.4	37	78	14	94	75	4	6	13	1.16
1169073--1169109	19	1.9	20	88	5	58	72	0	10	16	1.10
1169147--1169191	25	1.9	24	86	13	67	48	6	0	44	1.29
1169158--1169600	36	12.6	35	76	15	323	44	6	2	46	1.43
1169209--1169278	30	2.3	29	85	4	95	42	4	4	48	1.42
1169135--1169247	38	3.1	35	80	14	106	46	3	1	47	1.30
1169242--1169600	73	5.0	72	83	12	413	44	6	2	45	1.44
1169163--1169600	140	3.1	130	76	16	332	45	6	2	45	1.42
1169242--1169600	36	10.1	36	78	14	329	44	6	2	45	1.44
1170193--1170942	81	9.2	81	83	6	754	25	20	23	30	1.98
1172070--1172311	93	2.7	92	85	4	307	30	18	17	34	1.94
1176124--1176158	16	2.2	16	89	0	52	77	2	2	17	1.02
1176195--1176280	15	6.0	14	69	18	61	79	4	3	12	1.02
1176196--1176253	7	8.3	7	78	14	50	82	3	1	12	0.86
1176198--1176241	20	2.2	20	95	0	79	81	4	2	11	0.92
1177544--1177582	20	2.0	20	85	10	53	74	0	7	17	1.05
1177685--1177749	27	2.3	27	86	7	85	41	3	6	49	1.43
1177652--1177804	61	2.4	64	80	9	154	42	4	5	47	1.46
1177717--1178041	71	4.6	71	83	12	388	43	6	3	46	1.47
1177787--1177850	28	2.2	28	88	5	92	42	6	4	46	1.49
1177817--1178076	37	7.1	37	82	8	311	44	5	3	46	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1186699--1186745	22	2.1	22	84	7	60	59	2	12	25	1.45
1186827--1186881	18	3.1	18	94	0	92	18	9	38	34	1.82
1205730--1205800	32	2.2	32	82	0	79	33	14	16	35	1.89
1212203--1212279	31	2.5	31	95	0	136	35	16	16	31	1.92
1212668--1212719	2	26.0	2	100	0	104	50	0	0	50	1.00
1213784--1214007	95	2.4	95	82	3	272	29	13	28	28	1.95
1213954--1214007	22	2.6	21	74	8	56	29	12	33	24	1.92
1214448--1214713	45	6.1	45	82	4	294	41	9	18	30	1.81
1214448--1214713	90	3.0	88	82	6	326	41	9	18	30	1.81
1229035--1229100	33	2.1	31	88	8	98	36	25	15	22	1.93

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