genome.fa.s1978.2.7.7.80.10.50.1000.5.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: VEPZ01001978.1 Hibiscus syriacus cultivar Beakdansim tig00004013_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2594977

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

This is table  5  of  10  ( 1125 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)
1075439--1075478	18	2.2	18	86	0	53	42	20	22	15	1.88
1078630--1078671	15	2.8	15	82	7	50	54	14	2	28	1.52
1079955--1080035	3	27.3	3	71	16	62	58	0	3	38	1.16
1079955--1080036	8	10.0	8	75	21	73	57	0	3	39	1.16
1079965--1080036	26	2.9	25	84	13	87	56	0	4	38	1.18
1079956--1080032	34	2.4	30	81	12	91	57	0	3	38	1.17
1080178--1080231	20	2.7	20	82	0	63	29	20	24	25	1.99
1080417--1080464	20	2.4	20	82	0	51	27	25	25	22	2.00
1080168--1080557	119	3.3	119	94	0	672	33	18	16	31	1.93
1081120--1081178	22	2.7	22	91	0	100	38	15	8	37	1.78
1097069--1097166	3	33.7	3	69	17	55	56	0	4	39	1.19
1097070--1097166	19	5.0	21	71	17	84	56	0	4	39	1.18
1105778--1105820	15	2.9	15	93	3	70	30	27	16	25	1.97
1115063--1115333	91	3.0	90	86	4	364	38	16	19	25	1.93
1127657--1127702	21	2.1	22	88	4	67	65	10	4	19	1.41
1139326--1139376	22	2.3	22	86	0	66	33	1	31	33	1.69
1142337--1142394	2	29.0	2	100	0	116	50	0	0	50	1.00
1144555--1144623	14	4.8	14	76	11	68	72	0	4	23	1.02
1144644--1144732	26	3.4	26	100	0	178	44	6	0	48	1.29
1144703--1144955	39	6.6	39	83	9	308	43	6	2	47	1.42
1150013--1150071	17	3.4	17	72	21	59	62	6	13	16	1.51
1156341--1156429	33	2.7	33	75	6	90	28	30	13	28	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1156489--1156565	40	1.9	40	83	0	100	29	16	16	36	1.92
1156664--1156750	27	3.0	27	71	19	86	29	14	27	27	1.96
1156658--1156780	32	4.0	32	76	12	114	30	13	27	27	1.94
1160722--1160818	50	1.9	50	85	4	133	16	22	25	35	1.95
1167375--1167462	46	1.9	44	82	11	106	25	6	20	47	1.74
1167624--1167680	24	2.4	23	80	13	62	63	1	3	31	1.22
1167758--1167796	15	2.6	15	80	15	53	69	2	2	25	1.14
1168627--1168692	30	2.2	30	83	0	78	33	21	31	13	1.92
1173579--1173658	41	2.0	41	89	0	124	20	12	13	53	1.71
1173578--1173667	41	2.2	42	84	8	121	18	11	16	53	1.72
1173991--1174843	182	4.7	181	89	1	1192	41	14	16	27	1.87
1177686--1177738	24	2.2	24	82	0	61	33	1	15	49	1.55
1179202--1179530	178	1.8	179	88	4	513	37	14	16	32	1.89
1179362--1179797	200	2.2	200	87	2	608	37	13	16	32	1.88
1193271--1193309	20	1.9	21	84	5	53	43	12	7	35	1.72
1193638--1193667	14	2.1	14	100	0	60	56	6	0	36	1.26
1193659--1193684	11	2.4	11	100	0	52	42	7	0	50	1.31
1193936--1193973	3	12.7	3	100	0	76	31	0	0	68	0.90
1195963--1196323	130	2.8	131	83	2	467	32	9	14	42	1.79
1203077--1203163	41	2.1	41	85	6	113	26	20	20	32	1.97
1203053--1204100	233	4.6	230	81	5	1115	32	15	16	35	1.91
1203053--1204080	465	2.2	454	83	4	1237	32	15	16	35	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1204385--1204857	134	3.5	134	85	1	574	32	20	17	29	1.95
1204814--1204898	41	2.1	41	90	0	134	32	20	18	28	1.96
1204663--1205032	175	2.1	175	82	2	429	33	18	16	31	1.93
1204520--1205155	309	2.1	309	82	3	762	32	20	16	30	1.94
1204838--1205155	134	2.4	134	83	3	406	33	21	14	30	1.93
1205341--1205376	3	12.0	3	88	11	56	33	0	0	66	0.92
1206156--1206194	18	2.2	18	86	4	53	79	2	7	10	1.02
1207359--1207657	131	2.3	131	82	0	366	34	10	14	40	1.80
1208790--1208819	15	1.9	16	93	6	53	46	30	20	3	1.66
1208795--1209015	114	1.9	115	87	4	329	35	21	14	28	1.93
1216154--1216215	20	2.9	21	80	7	72	25	30	25	17	1.97
1216383--1216424	20	2.1	20	95	0	75	52	21	7	19	1.69
1221257--1221347	41	2.2	42	82	2	112	38	16	6	38	1.75
1222928--1223013	32	2.7	32	88	0	118	32	22	13	31	1.93
1232344--1232386	17	2.5	17	84	0	50	34	16	13	34	1.88
1235187--1235228	16	2.5	17	88	3	59	47	0	0	52	1.00
1235167--1235240	39	2.0	35	87	10	103	47	1	0	51	1.09
1237301--1237344	19	2.3	19	84	7	54	31	6	0	61	1.22
1237293--1237359	30	2.2	30	82	10	75	32	7	0	59	1.25
1246937--1246991	22	2.5	22	93	0	101	34	10	14	40	1.81
1247733--1248903	76	15.4	76	97	0	2207	21	20	21	36	1.95
1249045--1249086	16	2.5	17	88	3	59	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)
1249025--1249098	39	2.0	35	87	10	103	47	1	0	51	1.09
1249099--1249123	3	8.3	3	100	0	50	68	0	0	32	0.90
1256970--1257020	23	2.2	23	89	0	75	37	11	17	33	1.86
1256948--1257115	87	1.9	87	93	2	293	39	13	14	32	1.85
1257057--1257107	23	2.2	23	89	0	75	37	9	21	31	1.86
1257206--1257265	23	2.6	23	83	0	84	40	6	18	35	1.77
1257018--1257559	158	3.4	158	93	0	913	40	12	14	32	1.84
1257364--1257413	23	2.2	23	88	0	73	40	12	16	32	1.84
1257809--1257874	2	33.0	2	100	0	132	50	0	0	50	1.00
1259756--1260899	199	5.8	199	87	2	1496	32	15	13	38	1.87
1259743--1260893	397	2.9	397	86	3	1548	32	15	13	38	1.87
1259756--1260893	596	1.9	596	86	3	1601	32	15	13	38	1.87
1262449--1262500	24	2.2	24	89	6	79	51	13	5	28	1.64
1263876--1263927	6	8.7	6	83	8	52	21	28	3	46	1.69
1265414--1266758	199	6.8	199	88	0	1881	32	14	13	39	1.85
1271441--1271480	15	2.7	15	92	0	62	17	55	0	27	1.43
1271497--1271521	9	2.8	9	100	0	50	20	68	0	12	1.21
1273453--1273547	24	4.0	23	84	5	100	54	16	10	17	1.69
1273453--1273537	12	7.1	12	71	12	59	54	16	11	17	1.71
1273456--1273561	24	4.4	24	80	3	88	54	15	12	17	1.70
1274204--1274233	13	2.3	13	94	0	51	20	20	40	20	1.92
1276228--1276319	24	3.8	24	80	0	103	50	16	11	21	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1276228--1276336	24	4.5	24	80	0	92	49	15	12	22	1.78
1278806--1278848	17	2.5	17	100	0	86	27	23	32	16	1.96
1280691--1281353	182	3.6	182	87	3	888	27	15	14	41	1.86
1282477--1282519	17	2.4	18	80	7	52	67	2	11	18	1.32
1283472--1283507	16	2.2	17	90	5	56	11	22	5	61	1.50
1287861--1287920	21	2.9	21	92	0	93	23	36	6	33	1.81
1291631--1291678	23	2.1	23	100	0	96	47	12	8	31	1.71
1296499--1296550	27	1.9	27	84	7	70	28	17	19	34	1.94
1296960--1297006	24	1.9	25	86	4	69	51	10	2	36	1.49
1301294--1301625	69	5.1	65	77	11	283	46	6	6	40	1.57
1306590--1306692	49	2.1	51	81	7	122	52	12	13	21	1.73
1307686--1308133	238	1.9	239	89	2	695	34	17	16	32	1.92
1308237--1308570	53	6.2	52	80	6	276	41	17	8	31	1.81
1308236--1308655	55	7.8	55	80	9	289	41	16	9	32	1.80
1308421--1308666	109	2.2	109	86	1	330	40	14	8	36	1.77
1309913--1309990	28	2.8	28	88	5	113	23	3	33	39	1.73
1313813--1313870	20	2.9	19	89	5	80	13	25	36	24	1.92
1317677--1317716	21	1.9	21	85	10	55	35	10	2	52	1.48
1321707--1321749	20	2.2	20	100	0	86	48	18	18	13	1.80
1327642--1327894	87	2.9	87	80	6	303	30	18	18	31	1.96
1327812--1328113	129	2.3	129	85	4	383	29	19	20	30	1.97
1328150--1328355	39	5.3	39	92	0	315	34	16	17	31	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1328201--1328302	20	5.2	20	61	17	52	32	16	17	33	1.93
1328333--1328379	24	2.0	24	95	0	85	31	19	19	29	1.96
1328293--1328419	63	2.0	63	92	0	209	33	18	18	29	1.95
1328359--1328622	39	6.8	39	90	0	357	37	18	17	26	1.93
1328255--1328457	102	2.0	102	90	1	318	34	17	18	29	1.94
1328218--1328496	141	2.0	141	87	1	398	35	17	17	29	1.93
1328177--1328535	180	2.0	180	88	1	531	34	18	17	29	1.94
1328631--1328868	76	3.1	75	86	4	309	40	13	13	32	1.84
1335752--1335796	18	2.5	20	75	20	53	24	6	4	64	1.37
1336371--1336690	162	2.0	162	100	0	640	35	8	14	40	1.77

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