genome.fa.s7950.2.7.7.80.10.50.1000.6.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: VEPZ01007950.1 Hibiscus syriacus cultivar Beakdansim tig00110372_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1941792

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

This is table  6  of  10  ( 1138 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)
1104984--1105034	11	4.7	11	78	4	59	74	3	3	17	1.12
1104925--1105031	5	20.8	5	71	7	72	70	2	5	21	1.21
1107840--1107900	21	2.9	21	75	2	68	70	0	4	24	1.07
1107857--1107942	34	2.5	34	84	7	102	69	0	5	24	1.10
1107848--1107942	37	2.6	36	82	11	106	70	0	5	24	1.07
1107982--1108024	18	2.4	18	88	0	59	69	0	9	20	1.15
1109155--1109179	5	5.0	5	100	0	50	80	0	0	20	0.72
1109912--1109959	17	2.7	18	80	9	62	54	6	0	39	1.26
1112922--1112993	37	2.0	37	86	2	101	45	23	1	29	1.61
1115972--1116044	15	5.1	15	69	21	50	53	0	2	43	1.15
1115977--1116060	31	2.9	29	79	8	82	52	0	2	45	1.13
1117314--1117425	3	37.7	3	81	15	135	66	0	0	33	0.92
1117315--1117425	24	4.5	24	88	4	150	66	0	0	33	0.92
1117785--1118033	113	2.3	105	85	9	337	30	20	13	36	1.91
1118085--1118420	113	3.0	111	86	5	458	27	19	15	38	1.91
1117715--1118342	309	2.1	299	87	6	890	28	19	15	36	1.92
1118822--1118876	22	2.5	22	78	0	65	38	10	16	34	1.84
1119244--1119455	54	4.0	53	81	8	270	24	23	15	36	1.94
1119248--1119455	104	2.0	104	88	1	310	25	23	15	36	1.94
1121590--1121924	114	2.9	114	91	2	521	29	20	15	34	1.93
1126618--1126645	12	2.3	12	100	0	56	53	7	14	25	1.66
1129014--1129071	28	2.1	28	83	6	73	50	0	1	48	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1129039--1129090	21	2.4	22	78	18	56	53	1	1	42	1.23
1130375--1130509	3	44.7	3	87	10	195	65	0	0	34	0.93
1135394--1135468	35	2.1	35	87	0	105	45	24	0	30	1.53
1135463--1135540	35	2.2	34	80	10	86	39	0	17	42	1.50
1138145--1138173	14	2.1	14	100	0	58	34	0	13	51	1.42
1151136--1151165	2	15.0	2	92	0	51	50	3	0	46	1.18
1151332--1151370	19	2.1	19	100	0	78	41	10	25	23	1.86
1153086--1153437	140	2.6	136	83	8	410	28	18	13	39	1.88
1153362--1153810	123	3.7	123	93	0	729	24	17	16	41	1.89
1153827--1154124	37	8.1	36	71	6	195	38	12	16	32	1.86
1153827--1154124	73	4.1	73	87	5	413	38	12	16	32	1.86
1154844--1154922	22	3.6	22	94	0	131	37	11	16	34	1.85
1156411--1156502	41	2.3	40	86	1	121	25	20	14	40	1.90
1158852--1158896	21	2.2	20	88	11	65	2	13	0	84	0.72
1158859--1158898	15	2.6	15	92	4	62	2	15	0	82	0.77
1158854--1158898	5	9.2	5	77	22	51	2	15	0	82	0.77
1159183--1159267	2	42.5	2	100	0	170	50	0	0	49	1.00
1163800--1163865	2	33.0	2	96	0	123	50	1	0	48	1.10
1164093--1164134	15	2.6	16	80	20	52	66	2	7	23	1.28
1167456--1167508	27	1.9	28	85	11	74	24	5	0	69	1.09
1167506--1167534	2	14.5	2	100	0	58	48	0	0	51	1.00
1167576--1167661	32	2.6	34	75	15	92	27	4	2	65	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1167665--1167707	17	2.5	17	85	11	52	13	11	2	72	1.22
1167685--1167725	20	2.0	20	85	0	55	7	9	4	78	1.10
1167698--1167788	29	3.1	29	77	16	98	15	5	3	75	1.11
1169445--1169489	11	4.1	11	85	5	56	71	2	11	15	1.24
1174008--1174052	11	4.1	11	82	5	56	71	4	11	13	1.29
1174008--1174049	22	1.9	22	90	9	68	69	4	11	14	1.34
1178566--1178605	11	3.8	10	87	9	53	72	0	12	15	1.12
1184789--1184839	16	3.0	17	75	16	52	80	1	13	3	0.94
1185648--1185797	58	2.5	60	85	8	193	39	16	18	26	1.91
1186465--1186555	31	2.9	32	85	3	121	34	21	19	24	1.97
1190222--1190258	16	2.3	16	90	9	58	18	5	0	75	0.99
1190291--1190355	2	33.5	2	82	11	64	40	3	0	56	1.15
1190437--1190477	19	2.2	19	86	8	57	9	12	2	75	1.13
1190434--1190549	45	2.6	44	74	15	105	12	8	2	75	1.13
1190446--1190576	41	3.2	41	75	12	119	13	6	2	77	1.07
1190467--1190527	8	7.4	8	76	12	61	14	3	1	80	0.92
1190434--1190665	29	7.8	29	69	19	104	15	8	1	74	1.14
1190540--1190665	48	2.7	44	71	18	87	16	8	1	73	1.16
1190474--1190665	5	38.8	5	67	22	63	16	7	1	74	1.12
1190617--1190662	24	2.0	24	86	4	67	15	13	0	71	1.14
1196841--1196921	40	2.1	39	83	6	101	60	7	6	25	1.47
1208884--1208919	2	18.5	2	88	5	56	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1210959--1210999	21	2.0	21	90	0	64	17	26	17	39	1.91
1210960--1211006	21	2.2	21	84	0	58	21	25	19	34	1.96
1210996--1211069	20	3.7	20	78	3	94	37	18	21	21	1.94
1211266--1211331	22	3.0	22	84	0	87	25	39	15	19	1.91
1211702--1211748	20	2.3	20	88	0	67	19	17	25	38	1.92
1211716--1211770	20	2.8	20	88	0	74	12	16	21	49	1.79
1211735--1211779	20	2.2	20	84	0	54	17	13	17	51	1.77
1213655--1213837	20	9.5	20	85	7	236	39	19	20	20	1.92
1213711--1213869	20	8.4	19	82	9	112	41	17	20	20	1.90
1213655--1213858	40	5.4	40	79	11	236	40	19	20	19	1.91
1213884--1213930	20	2.3	20	88	0	67	21	19	23	36	1.95
1213902--1213997	33	2.8	33	74	3	93	14	18	21	44	1.86
1213971--1214017	20	2.3	20	96	0	85	14	17	25	42	1.87
1215985--1216019	14	2.5	14	85	0	52	31	0	20	48	1.50
1216201--1216274	33	2.2	34	92	2	123	14	22	17	44	1.86
1216259--1216324	20	3.2	21	79	20	77	18	18	19	43	1.88
1216267--1216334	20	3.4	20	87	4	93	17	16	25	41	1.89
1218539--1218565	14	1.9	14	100	0	54	7	11	29	51	1.64
1218777--1218823	24	2.0	24	95	0	85	34	17	21	27	1.95
1218781--1218832	24	2.2	24	85	0	68	36	19	19	25	1.95
1219691--1219817	20	6.3	20	89	5	202	20	19	20	39	1.93
1219691--1219817	61	2.1	60	91	4	202	20	19	20	39	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1219814--1219859	21	2.2	21	88	0	65	36	17	28	17	1.92
1220682--1220714	16	2.1	16	100	0	66	57	24	12	6	1.57
1220779--1220817	16	2.4	16	100	0	78	56	23	12	7	1.62
1221558--1221605	10	4.4	10	78	19	51	54	22	12	10	1.68
1221565--1221595	14	2.2	14	94	0	53	54	22	12	9	1.67
1221545--1221606	24	2.6	24	89	5	90	54	19	12	12	1.70
1229984--1230025	22	2.0	22	85	4	59	76	2	11	9	1.12
1234988--1235037	20	2.5	20	80	6	57	16	2	8	74	1.15
1236768--1236950	84	2.2	84	85	4	246	30	16	18	34	1.93
1236900--1237291	83	4.8	84	82	5	435	31	16	17	33	1.93
1236893--1237291	164	2.4	164	84	3	482	31	16	18	33	1.93
1238080--1238148	23	3.0	23	84	0	93	30	26	24	18	1.98
1243316--1243384	23	3.0	23	84	0	93	30	26	24	18	1.98
1244978--1245137	64	2.5	63	82	4	185	26	22	16	33	1.96
1248088--1248141	21	2.6	20	77	8	63	24	22	22	31	1.98
1248128--1248201	20	3.7	20	89	3	105	37	14	20	27	1.92
1248170--1248229	20	3.0	20	92	0	93	26	23	20	30	1.98
1249058--1249111	24	2.2	24	93	0	90	20	18	20	40	1.91
1249301--1249337	14	2.6	14	91	4	56	51	21	21	5	1.68
1251313--1251347	18	1.9	18	88	0	52	54	22	2	20	1.58
1251647--1251686	20	2.0	20	90	0	62	37	20	12	30	1.89
1251732--1251810	20	4.0	20	84	0	104	29	17	18	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1251854--1251911	20	2.9	21	77	10	68	12	15	27	44	1.82
1252033--1252071	14	2.8	14	92	0	60	46	15	0	38	1.46
1254045--1254090	20	2.4	19	82	7	58	34	26	17	21	1.95
1254134--1254179	20	2.3	20	80	0	56	17	21	21	39	1.93
1254315--1254364	18	2.8	18	96	0	91	44	6	18	32	1.74
1256137--1256180	19	2.3	19	88	7	63	47	22	15	13	1.81
1256794--1256867	20	3.7	20	87	5	105	24	18	28	28	1.98
1256783--1256872	40	2.2	40	84	3	128	24	18	26	30	1.98
1259243--1259401	63	2.5	64	78	8	171	25	23	18	32	1.97
1260050--1260093	22	2.0	23	86	4	63	47	20	2	29	1.62

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