genome.fa.s9074.2.7.7.80.10.50.1000.7.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: VEPZ01009074.1 Hibiscus syriacus cultivar Beakdansim tig00112507_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2143704

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

This is table  7  of  11  ( 1290 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)
1153339--1153384	18	2.6	19	86	13	71	39	0	10	50	1.38
1155961--1156003	2	21.5	2	100	0	86	51	0	0	48	1.00
1156618--1156681	24	2.6	25	87	7	87	42	10	0	46	1.39
1157985--1158018	16	2.1	16	88	5	50	11	5	0	82	0.83
1158026--1158056	6	5.3	6	96	3	55	16	0	0	83	0.64
1157979--1158111	57	2.3	57	78	11	135	18	7	0	73	1.10
1158028--1158112	18	4.9	17	74	8	73	17	5	1	75	1.07
1160471--1160614	45	3.2	45	96	1	261	31	23	6	38	1.80
1160615--1160919	59	5.2	58	79	4	204	29	21	11	37	1.89
1160844--1160941	30	3.3	30	64	22	80	28	24	11	35	1.90
1160674--1160995	59	5.5	58	83	6	353	28	22	11	37	1.88
1169188--1169266	27	2.9	28	79	11	74	59	5	0	35	1.19
1169363--1169426	21	3.0	21	88	9	85	65	3	1	29	1.17
1169360--1169426	11	5.8	12	76	15	70	67	2	1	28	1.14
1172916--1172977	27	2.3	27	97	0	115	38	16	20	24	1.92
1175029--1175068	20	2.0	20	90	5	62	40	20	12	27	1.88
1179703--1179757	21	2.4	22	79	17	58	32	0	10	56	1.34
1179747--1179830	20	4.3	20	65	8	57	33	3	16	46	1.64
1180075--1180119	20	2.2	21	88	4	65	60	11	6	22	1.54
1183244--1183291	12	4.0	12	81	7	53	45	0	0	54	0.99
1183223--1183300	24	3.3	23	82	7	75	50	2	0	47	1.15
1183271--1183377	11	9.6	11	70	14	53	48	5	0	44	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1183260--1183304	14	3.4	14	85	11	60	48	2	0	48	1.13
1183269--1183343	26	2.8	26	78	6	62	48	6	1	44	1.37
1183680--1183733	22	2.5	20	80	16	63	46	0	1	51	1.11
1184809--1184851	13	3.5	13	81	12	54	65	0	4	30	1.13
1184798--1184853	24	2.3	24	87	0	76	64	0	5	30	1.16
1184807--1184849	12	3.6	12	81	12	52	62	0	4	32	1.15
1185629--1185688	29	2.0	31	90	6	97	35	6	16	41	1.75
1185753--1185818	19	3.5	19	85	0	78	37	10	13	37	1.80
1185924--1185965	21	2.0	21	90	0	66	26	21	26	26	1.99
1185994--1186033	20	1.9	21	85	10	55	37	37	10	15	1.80
1187170--1187217	19	2.5	20	82	3	62	52	6	12	29	1.63
1188479--1188538	29	2.0	31	90	6	97	35	6	16	41	1.75
1188613--1188667	19	2.9	19	88	0	83	38	10	12	38	1.79
1188772--1188813	21	2.0	21	90	0	66	26	21	26	26	1.99
1191124--1191240	60	2.0	60	96	0	216	27	7	26	38	1.83
1192996--1193044	24	2.0	24	85	14	66	30	0	2	67	1.02
1192994--1193079	39	2.2	38	83	6	102	36	1	2	60	1.17
1195863--1196194	165	2.0	164	95	4	607	28	18	17	36	1.93
1199514--1199552	20	1.9	20	84	5	51	0	64	2	33	1.08
1199923--1199956	16	2.2	16	89	5	52	44	0	5	50	1.26
1204181--1204220	21	1.9	21	100	0	80	32	12	15	40	1.84
1204302--1204334	16	2.1	16	88	11	50	72	21	0	6	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1207712--1207955	131	1.9	131	82	5	314	47	7	7	38	1.60
1209429--1209491	12	5.2	12	83	9	56	58	0	0	41	0.98
1209436--1209541	3	36.0	3	82	9	121	65	0	1	33	1.04
1209429--1209513	28	3.1	28	85	11	97	58	0	1	40	1.05
1209667--1210014	45	7.7	45	94	0	588	33	17	23	24	1.96
1210672--1210723	22	2.4	22	90	0	86	34	13	13	38	1.84
1211263--1211318	23	2.4	23	90	0	94	8	51	16	23	1.72
1213500--1213609	53	2.1	53	91	3	177	29	17	14	39	1.89
1214485--1214730	75	3.4	72	82	7	230	29	22	16	32	1.95
1214534--1214730	75	2.6	75	87	6	258	29	22	15	32	1.95
1214863--1214896	17	2.0	17	100	0	68	23	29	11	35	1.90
1221936--1221972	2	18.5	2	100	0	74	51	0	0	48	1.00
1222670--1222913	131	1.9	131	86	1	355	49	8	6	36	1.59
1224118--1224174	22	2.6	22	94	0	96	43	19	21	15	1.87
1225767--1226461	106	6.5	106	95	0	1219	21	18	25	34	1.96
1226973--1227008	17	2.0	19	89	10	58	44	30	5	19	1.73
1228118--1228186	8	9.1	7	73	20	59	0	15	7	76	0.99
1228112--1228165	16	3.4	17	78	9	53	0	16	9	74	1.07
1228159--1228192	16	2.1	16	89	10	52	0	14	8	76	1.01
1230071--1230099	5	5.8	5	100	0	58	82	0	0	17	0.66
1231355--1231411	22	2.6	22	94	0	96	43	19	21	15	1.87
1233506--1233584	3	26.0	3	82	12	90	63	0	0	36	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1233506--1233582	29	2.6	28	79	18	86	62	0	0	37	0.96
1233506--1233585	35	2.3	34	85	8	99	63	0	0	36	0.94
1236601--1236694	39	2.4	40	84	7	113	68	1	10	20	1.26
1236696--1236809	41	2.9	38	78	11	99	73	2	9	14	1.19
1236856--1236909	3	18.0	3	78	0	54	64	1	3	29	1.21
1236835--1236909	21	3.8	20	74	8	55	64	2	4	29	1.26
1236858--1236923	18	3.4	18	77	8	51	66	1	3	28	1.15
1236951--1237084	5	27.2	5	69	19	68	73	0	2	23	1.02
1236953--1237070	41	2.8	40	78	12	112	71	0	3	24	1.07
1237976--1238015	17	2.5	16	88	8	55	60	0	2	37	1.11
1238602--1239537	84	11.2	84	86	1	1223	24	19	23	31	1.98
1238586--1239549	168	5.7	168	89	0	1392	24	19	23	31	1.98
1240676--1240879	98	2.1	96	83	6	252	32	21	16	30	1.95
1245064--1245088	11	2.3	11	100	0	50	16	36	8	40	1.77
1249696--1249840	63	2.3	63	81	5	159	31	21	22	24	1.98
1250577--1250684	31	3.5	31	79	11	121	31	17	14	36	1.90
1250579--1250700	63	2.0	62	85	4	165	31	18	17	33	1.94
1250577--1250700	31	4.0	31	75	5	115	30	17	16	34	1.93
1250672--1250752	30	2.7	30	80	1	92	16	20	27	35	1.94
1253430--1253586	63	2.5	62	83	7	183	33	20	22	23	1.97
1254320--1254446	31	4.1	31	79	8	132	27	17	20	34	1.95
1254405--1254488	30	2.8	31	80	7	84	19	17	27	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1256462--1256553	40	2.3	41	85	7	118	72	2	9	15	1.19
1256501--1256635	25	5.5	25	81	10	74	75	0	7	17	1.02
1256556--1256645	13	7.0	14	82	17	124	80	0	4	15	0.87
1256565--1256645	12	6.5	12	80	19	87	81	0	3	14	0.82
1256559--1256645	25	3.4	25	98	1	165	80	0	4	14	0.87
1256657--1256821	26	6.4	26	69	23	66	70	1	3	24	1.13
1256723--1256756	9	3.8	9	100	0	68	70	0	0	29	0.87
1256750--1256825	12	6.0	12	70	15	55	72	1	2	23	1.05
1256750--1256825	32	2.4	32	88	4	109	72	1	2	23	1.05
1256999--1257042	22	2.0	21	83	12	54	68	0	11	20	1.20
1257343--1257522	65	2.8	63	84	9	213	31	21	16	30	1.96
1263309--1263367	21	2.7	22	78	5	66	27	22	25	25	2.00
1263290--1263370	23	3.6	22	78	8	92	24	24	24	25	2.00
1265632--1265696	12	5.2	12	73	14	60	38	0	33	27	1.57
1265630--1265705	38	2.0	39	94	2	136	39	0	35	25	1.56
1266079--1266203	64	1.9	65	88	7	193	29	22	19	28	1.98
1267743--1267811	25	2.7	26	78	13	72	49	1	7	42	1.39
1270034--1270095	27	2.3	27	100	0	124	25	16	24	33	1.95
1270666--1270744	34	2.3	34	97	0	149	58	0	0	41	0.98
1270659--1270746	34	2.5	35	90	7	142	57	0	0	42	0.98
1270800--1270824	13	1.9	13	100	0	50	56	24	8	12	1.62
1271363--1271401	19	2.1	19	90	0	60	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1271841--1271891	24	2.1	25	85	3	68	58	13	15	11	1.63
1271845--1271898	24	2.2	24	80	0	63	61	14	12	11	1.58
1273227--1273281	26	2.1	27	82	3	67	40	7	25	27	1.82
1277902--1277960	13	4.4	14	84	4	77	23	28	15	32	1.95
1282570--1282609	20	1.9	22	85	10	57	47	7	0	45	1.31
1283321--1283403	24	3.3	24	73	15	78	59	10	10	19	1.60
1283352--1283403	23	2.2	24	82	3	61	57	9	11	21	1.62
1286692--1286738	13	3.5	13	77	13	51	55	2	2	40	1.24
1288139--1288244	12	8.8	12	73	22	66	58	0	1	39	1.09
1288159--1288241	3	27.7	3	90	0	130	61	0	2	36	1.09

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