genome.fa.s9001.2.7.7.80.10.50.1000.5.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: VEPZ01009001.1 Hibiscus syriacus cultivar Beakdansim tig00112383_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4740655

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   

This is table  5  of  24  ( 2777 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)
1018709--1019049	126	2.6	130	82	8	390	36	10	10	42	1.75
1018798--1019079	139	2.0	138	87	6	410	37	9	10	42	1.72
1021440--1021485	22	2.1	22	95	0	83	21	15	0	63	1.31
1027342--1027432	33	2.8	33	86	0	128	30	24	23	21	1.99
1027375--1027520	75	1.9	75	84	5	197	38	23	20	17	1.93
1029509--1029614	2	54.0	2	84	7	110	47	0	3	48	1.26
1029528--1029633	56	1.9	56	98	0	203	46	0	7	45	1.38
1029884--1029916	11	3.0	11	100	0	66	27	0	0	72	0.85
1029884--1029926	11	3.8	11	87	6	50	25	2	0	72	0.97
1029884--1029926	22	2.0	22	86	9	61	25	2	0	72	0.97
1033419--1033477	19	3.2	19	70	13	52	47	1	0	50	1.11
1036125--1036150	2	13.0	2	100	0	52	0	50	0	50	1.00
1041852--1041881	13	2.4	13	94	5	53	26	30	0	43	1.55
1050334--1050371	15	2.5	15	91	0	67	55	7	0	36	1.29
1051408--1051456	24	2.0	24	88	4	71	65	4	2	28	1.22
1055814--1055870	24	2.4	23	80	13	71	1	12	47	38	1.51
1055950--1055993	23	1.9	23	90	0	70	61	0	0	38	0.96
1056597--1056699	42	2.5	41	79	4	109	30	19	23	27	1.98
1056453--1057189	241	3.0	240	87	1	1028	36	15	17	30	1.91
1057189--1057403	57	3.8	57	78	6	195	42	16	9	31	1.80
1064394--1064432	20	2.0	20	89	0	60	33	10	23	33	1.88
1066607--1066656	24	2.1	23	85	3	64	68	4	4	24	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1067688--1067755	12	6.0	12	73	13	63	38	20	22	19	1.94
1067687--1067752	22	3.0	22	84	0	87	40	18	21	19	1.91
1067776--1067826	21	2.4	22	83	6	68	21	29	23	25	1.99
1068532--1068625	31	3.0	31	82	3	109	35	21	18	25	1.95
1071052--1071097	23	2.0	23	86	0	65	6	6	36	50	1.54
1072205--1072271	21	3.3	19	78	14	71	26	31	16	25	1.96
1080027--1080064	15	2.5	15	95	0	67	28	21	31	18	1.97
1082005--1082041	15	2.5	15	86	0	56	62	0	37	0	0.96
1084802--1084841	17	2.5	15	88	8	53	52	2	0	45	1.14
1084866--1084914	23	2.2	23	92	3	82	48	4	6	40	1.47
1084985--1085063	14	5.9	14	69	16	51	40	10	3	45	1.56
1085040--1085084	21	2.1	22	87	4	65	51	4	2	42	1.34
1085324--1085381	13	4.5	13	81	16	68	41	8	1	48	1.44
1085324--1085382	27	2.3	27	83	16	72	40	8	1	49	1.43
1085309--1085392	41	2.0	41	83	0	105	40	10	1	47	1.46
1085337--1085392	14	4.1	14	77	13	62	41	10	1	46	1.49
1085371--1085449	35	2.2	36	82	10	92	46	12	1	39	1.50
1085367--1085509	57	2.5	58	89	3	218	46	11	2	39	1.53
1085404--1085469	22	3.0	22	80	10	57	46	12	1	39	1.50
1085610--1085646	12	3.1	12	92	0	56	35	10	27	27	1.90
1088663--1088709	14	3.5	14	80	11	62	48	0	2	48	1.13
1088834--1088891	21	2.8	20	82	5	80	50	8	3	37	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1088951--1089008	16	3.4	16	80	17	71	50	10	0	39	1.37
1088958--1088998	20	2.0	20	90	9	66	53	9	0	36	1.34
1089514--1089557	21	2.1	21	100	0	88	56	13	0	29	1.38
1089514--1089565	21	2.5	21	90	6	70	57	13	0	28	1.36
1090721--1090762	21	2.0	22	90	4	68	64	0	7	28	1.20
1091448--1091652	2	102.5	2	63	19	54	42	3	4	49	1.41
1091457--1091543	40	2.2	38	85	4	111	42	4	6	45	1.51
1091630--1091676	9	5.3	9	77	12	53	38	0	0	61	0.96
1094672--1094728	24	2.4	24	84	0	69	59	15	12	12	1.61
1095243--1095381	43	3.2	43	95	0	242	37	15	12	33	1.86
1096303--1096340	18	2.1	18	90	0	58	36	0	0	63	0.95
1100510--1100566	28	2.0	29	89	3	89	42	14	19	24	1.88
1111772--1111809	20	1.9	20	89	10	60	28	31	5	34	1.80
1125427--1125457	13	2.4	13	94	0	53	12	16	45	25	1.83
1125657--1126424	136	5.6	136	84	1	930	26	20	19	33	1.97
1125657--1126424	273	2.8	271	84	1	926	26	20	19	33	1.97
1126901--1127019	41	2.9	41	78	3	114	29	22	21	26	1.99
1126958--1127203	136	1.8	135	84	7	336	34	19	18	28	1.95
1127224--1127355	53	2.5	52	78	8	131	43	15	14	26	1.84
1127224--1127355	54	2.5	51	78	8	129	43	15	14	26	1.84
1128205--1128244	17	2.5	15	92	8	62	12	0	5	82	0.82
1133021--1133071	19	2.6	19	90	3	75	80	9	7	1	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1139060--1139123	27	2.4	27	81	5	76	40	29	6	23	1.79
1141689--1141761	27	2.7	27	75	8	69	39	26	8	26	1.84
1145919--1145943	11	2.3	11	100	0	50	84	0	16	0	0.63
1151041--1151068	9	3.1	9	100	0	56	67	0	21	10	1.20
1151468--1151546	18	4.4	18	70	19	67	73	1	16	8	1.15
1151493--1151526	17	2.1	16	88	5	50	76	2	11	8	1.12
1151830--1151856	11	2.5	11	100	0	54	25	11	11	51	1.70
1153546--1153705	44	3.7	43	91	1	257	27	13	31	27	1.94
1153546--1153708	87	1.9	87	94	2	292	28	14	30	26	1.95
1153743--1153856	42	2.7	40	75	10	111	24	22	22	29	1.99
1154036--1154152	36	3.2	36	83	2	144	23	20	18	37	1.94
1154124--1154266	75	1.9	75	88	0	214	30	22	13	34	1.92
1154617--1155582	134	7.3	133	84	2	1212	29	19	20	30	1.97
1154617--1155581	397	2.4	395	84	3	1220	29	19	20	30	1.97
1154622--1155533	44	20.7	44	65	8	244	29	19	20	30	1.97
1160442--1160488	22	2.1	22	92	0	76	61	0	8	29	1.25
1165060--1165117	18	3.2	18	79	16	57	72	0	5	22	1.04
1167326--1167372	2	23.5	2	100	0	94	48	0	0	51	1.00
1169036--1169089	27	2.0	27	100	0	108	25	7	14	51	1.68
1169147--1169186	2	20.0	2	94	0	71	52	0	0	47	1.00
1173099--1173132	3	10.7	3	87	12	50	38	0	0	61	0.96
1183670--1184213	225	2.4	225	93	0	901	30	18	18	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1184124--1184562	42	10.3	42	69	16	235	28	18	21	31	1.97
1184135--1184484	122	2.7	127	85	5	458	30	17	21	31	1.96
1184401--1184508	22	5.1	21	64	17	62	28	15	19	36	1.93
1184558--1184637	37	2.2	37	97	0	151	35	25	17	22	1.95
1184823--1184862	3	12.7	3	89	10	62	37	0	0	62	0.95
1194449--1194521	16	4.7	15	77	13	60	73	0	17	8	1.06
1194457--1194496	21	1.9	21	100	0	80	75	0	17	7	1.03
1194547--1194631	10	9.1	10	76	19	51	69	0	18	11	1.18
1194473--1194634	8	20.1	8	71	21	85	70	0	16	12	1.15
1194543--1194634	18	5.2	17	72	20	73	71	0	17	10	1.13
1194478--1194649	56	3.1	53	81	11	170	72	0	16	11	1.13
1195860--1195968	37	2.9	37	88	8	159	37	20	20	22	1.94
1195986--1196178	55	3.5	55	82	2	201	29	16	21	32	1.95
1197421--1197474	27	2.0	27	89	7	83	25	7	12	53	1.65
1197532--1197566	2	17.5	2	100	0	70	51	0	0	48	1.00
1198773--1198817	21	2.1	21	88	8	65	2	42	8	46	1.47
1206954--1207054	41	2.5	41	83	3	123	42	17	14	24	1.88
1206938--1207081	41	3.5	41	75	5	121	35	16	19	28	1.94
1207193--1207347	82	1.9	80	84	4	202	32	20	17	29	1.95
1207620--1207662	20	2.2	20	83	8	52	51	4	2	41	1.35
1207622--1207680	23	2.6	23	76	17	61	50	3	1	44	1.28
1207767--1207810	23	2.0	21	86	8	61	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1207784--1207908	42	3.2	40	77	18	120	48	0	0	51	1.00
1207822--1207876	18	3.1	17	79	10	56	47	0	0	52	1.00
1207809--1207915	37	2.8	39	76	16	116	46	0	0	53	1.00
1210676--1210724	18	2.6	19	83	6	64	30	20	22	26	1.98
1210688--1210744	21	2.7	22	78	13	66	28	19	28	24	1.98
1211735--1211861	54	2.3	55	78	8	143	29	23	19	26	1.98
1220312--1220433	54	2.3	54	89	0	181	30	27	19	22	1.98
1222763--1222861	34	2.9	34	73	20	98	40	5	8	46	1.55
1225536--1225673	69	2.0	69	100	0	276	42	11	15	30	1.83
1225785--1225844	32	1.9	31	82	3	75	43	5	3	48	1.41

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24