genome.fa.s9067.2.7.7.80.10.50.1000.6.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: VEPZ01009067.1 Hibiscus syriacus cultivar Beakdansim tig00112491_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2329927

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

This is table  6  of  10  ( 1150 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)
1103866--1103921	29	1.9	29	85	7	78	58	14	10	16	1.62
1106491--1106515	6	4.2	6	100	0	50	48	0	0	52	1.00
1107007--1107038	3	10.7	3	93	0	55	68	3	0	28	1.04
1108309--1108388	5	15.2	5	73	21	58	73	0	6	20	1.04
1108310--1108386	21	3.6	21	81	11	86	74	0	6	19	1.04
1108453--1108509	29	2.0	29	85	0	78	40	8	8	42	1.67
1108539--1108612	31	2.5	29	79	12	87	45	5	4	44	1.45
1108470--1108664	103	1.9	106	85	7	274	44	7	5	43	1.55
1108475--1108697	36	6.2	36	77	11	181	44	7	4	43	1.51
1108475--1108698	38	6.2	36	70	17	124	44	7	4	44	1.51
1111790--1111849	30	2.0	30	100	0	120	23	13	20	43	1.86
1113523--1113664	44	3.2	44	92	0	239	24	20	11	42	1.86
1114187--1114242	20	2.9	19	75	19	62	66	1	8	23	1.30
1114318--1114374	28	2.0	28	83	6	71	75	1	1	21	0.98
1114325--1114395	22	3.3	22	77	15	76	73	1	1	23	1.00
1114329--1114419	25	3.7	26	74	14	77	67	2	3	27	1.18
1114405--1114440	19	1.9	18	88	5	54	63	2	2	30	1.22
1114584--1114612	2	14.5	2	100	0	58	51	0	0	48	1.00
1115072--1115173	37	2.8	37	87	0	132	33	13	12	40	1.83
1115873--1117127	106	11.9	106	91	2	1945	22	17	25	34	1.96
1117853--1117911	24	2.6	22	76	12	57	47	6	15	30	1.71
1117853--1117912	23	2.7	21	75	14	57	46	6	15	31	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1118732--1118796	25	2.4	27	85	10	80	1	12	6	80	0.97
1118733--1118797	31	2.1	30	83	8	78	1	10	6	81	0.93
1118756--1118799	22	2.0	22	86	8	63	0	13	6	79	0.92
1118723--1118806	23	3.7	23	72	13	66	1	15	7	76	1.06
1123073--1123129	19	2.9	19	75	14	62	66	1	8	22	1.29
1123204--1123260	28	2.0	27	83	6	69	77	1	1	19	0.95
1123212--1123262	22	2.5	19	84	15	66	76	0	1	21	0.88
1124050--1124151	37	2.8	37	90	0	150	31	14	13	40	1.85
1144198--1144240	21	2.0	21	86	0	59	34	11	18	34	1.87
1144300--1144351	23	2.2	23	80	12	61	63	1	1	32	1.16
1144297--1144330	15	2.2	16	89	5	52	58	0	0	41	0.98
1144301--1144355	24	2.3	24	87	6	76	63	1	1	32	1.15
1146612--1146784	84	2.1	84	95	0	310	41	11	16	30	1.84
1148197--1148401	62	3.3	62	95	0	347	31	6	24	36	1.82
1152004--1152168	82	2.0	82	98	0	321	40	16	6	36	1.75
1153679--1153724	25	1.9	25	83	16	62	41	4	13	41	1.63
1160168--1160329	81	2.0	81	95	0	288	35	20	14	29	1.92
1163326--1163434	31	3.5	31	94	0	182	29	17	14	38	1.89
1163567--1163721	77	2.0	77	97	0	292	33	19	16	30	1.94
1166260--1166312	23	2.3	23	83	6	72	41	0	1	56	1.10
1174337--1174823	247	2.0	240	94	5	856	26	28	21	23	1.99
1176313--1176425	59	1.9	59	85	0	154	46	5	17	30	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1179483--1179565	11	7.3	11	73	15	53	33	3	2	60	1.27
1179517--1179580	23	2.9	21	77	13	65	39	3	1	56	1.25
1179735--1179784	21	2.4	22	80	10	59	28	4	2	66	1.21
1179770--1179803	9	3.9	9	88	7	52	41	0	0	58	0.98
1184185--1184237	21	2.5	20	82	14	63	75	7	16	0	1.02
1184854--1184904	22	2.3	22	96	0	93	35	27	11	25	1.91
1185642--1185739	36	2.8	36	90	1	153	26	23	12	37	1.90
1185852--1185937	37	2.4	36	86	3	111	25	20	13	39	1.90
1185655--1186100	100	4.5	101	90	4	712	30	20	12	36	1.90
1186014--1186165	63	2.4	64	95	2	279	32	19	13	35	1.90
1185887--1186200	165	1.9	166	91	3	517	30	20	12	36	1.90
1185787--1186302	265	1.9	265	84	5	684	29	20	13	37	1.90
1186269--1186340	37	1.9	37	82	0	90	26	22	11	40	1.87
1186689--1187045	96	3.6	97	84	5	396	33	24	22	19	1.97
1186676--1187544	109	8.4	105	79	8	730	32	24	21	21	1.98
1188005--1188079	35	2.1	37	87	5	109	40	16	14	29	1.88
1188548--1188586	15	2.5	15	79	4	51	35	2	0	61	1.10
1188636--1188671	16	2.2	16	90	5	54	27	0	2	69	1.02
1188657--1188784	59	2.2	59	84	7	170	33	5	1	59	1.30
1196275--1196310	18	2.0	18	100	0	72	22	11	16	50	1.77
1197226--1197268	21	2.0	22	90	4	70	39	16	18	25	1.91
1197647--1197681	3	11.0	3	88	11	52	31	0	5	62	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1206085--1206129	21	2.1	21	91	0	72	31	26	24	17	1.97
1207548--1207613	23	2.9	22	77	8	69	21	25	21	31	1.98
1209396--1209456	22	2.7	23	82	7	81	26	32	24	16	1.96
1214845--1214932	32	2.8	32	79	10	108	32	30	21	14	1.94
1214991--1215035	20	2.2	20	88	0	63	17	37	15	28	1.91
1218095--1218169	25	3.2	25	62	30	65	30	6	4	58	1.42
1218084--1218179	45	2.1	45	100	0	192	32	6	4	57	1.43
1230728--1230781	25	2.2	25	83	12	67	37	1	0	61	1.07
1230937--1231008	21	3.3	22	80	17	87	66	1	0	31	1.00
1231400--1231573	37	4.7	36	78	13	176	41	1	8	47	1.44
1231424--1231562	71	1.9	72	86	4	201	41	2	7	48	1.44
1232935--1233087	15	10.0	15	68	25	58	24	3	0	71	1.02
1232936--1233087	10	15.0	10	71	22	56	24	3	0	71	1.02
1232975--1233078	23	4.6	23	68	12	81	25	2	0	71	1.00
1233024--1233065	3	14.7	3	82	9	52	33	0	0	66	0.92
1232979--1233086	6	16.3	6	71	19	56	25	2	0	72	0.98
1241562--1241598	5	7.4	5	100	0	74	18	0	18	62	1.34
1252188--1252288	34	3.0	34	88	2	141	23	5	24	45	1.75
1262191--1262268	34	2.3	34	93	0	129	19	43	8	28	1.81
1271769--1271836	28	2.5	27	76	9	75	48	0	4	47	1.22
1272068--1272094	6	4.5	6	100	0	54	37	0	48	14	1.45
1277701--1277921	53	4.2	53	91	1	345	21	27	21	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1278317--1278631	122	2.6	122	92	1	497	30	22	17	29	1.97
1278439--1278502	20	3.0	21	70	17	69	31	25	18	25	1.98
1278429--1278798	164	2.3	164	98	0	704	29	23	18	28	1.98
1278561--1278666	20	5.0	21	69	17	94	30	24	19	25	1.98
1278301--1278798	42	12.2	42	68	13	295	29	23	18	29	1.97
1278725--1278788	22	3.0	21	68	17	60	31	21	18	28	1.97
1278737--1278832	22	4.6	21	74	16	92	30	22	21	25	1.99
1285787--1285897	45	2.4	46	81	7	125	34	20	12	32	1.90
1289188--1289408	53	4.2	53	91	1	336	22	27	21	29	1.99
1289804--1290118	122	2.6	122	92	1	506	29	22	18	29	1.97
1289926--1289989	20	3.0	21	70	17	69	31	25	18	25	1.98
1289916--1290285	164	2.3	164	97	0	695	29	22	18	28	1.98
1290048--1290153	20	5.0	21	69	17	94	30	24	19	25	1.98
1289788--1290285	42	12.2	42	67	13	277	29	22	18	29	1.97
1289968--1290240	80	3.4	80	73	9	300	29	22	17	30	1.97
1290263--1290319	22	2.7	21	89	5	89	29	24	21	24	1.99
1290436--1290536	42	2.4	41	78	3	112	27	22	22	26	1.99
1296699--1296729	16	1.9	16	93	0	53	61	9	12	16	1.56
1296767--1296810	4	11.5	4	90	9	74	25	0	27	47	1.52
1296769--1296810	19	2.2	19	100	0	84	26	0	26	47	1.52
1300669--1300733	30	2.1	32	82	5	80	56	4	0	38	1.20
1301038--1301118	18	4.3	19	80	14	89	43	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1301038--1301107	3	24.0	3	77	11	74	41	0	0	58	0.98
1302378--1302407	15	2.0	15	93	0	51	36	3	6	53	1.44
1308733--1308808	7	10.7	7	77	16	59	80	0	15	3	0.86
1308726--1308805	18	4.0	20	70	19	67	80	0	16	3	0.86
1308722--1308805	4	22.5	4	74	20	51	79	0	16	3	0.86
1311003--1311226	114	2.0	114	94	0	394	33	14	18	33	1.91
1313710--1313786	22	3.5	22	92	0	136	33	12	14	38	1.84
1314460--1315325	76	11.4	76	95	0	1507	24	18	22	34	1.96
1315472--1315549	18	4.4	18	80	16	85	44	0	0	55	0.99
1315471--1315538	3	23.0	3	79	8	68	42	0	0	57	0.98

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