genome.fa.s8647.2.7.7.80.10.50.1000.7.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: VEPZ01008647.1 Hibiscus syriacus cultivar Beakdansim tig00111634_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1422586

Tables:   1   2   3   4   5   6   7   8   

This is table  7  of  8  ( 913 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)
1089415--1089453	3	13.0	3	100	0	78	66	0	33	0	0.92
1093374--1093470	21	4.6	21	90	0	131	20	15	39	24	1.91
1093615--1093648	4	8.5	4	86	0	50	70	2	0	26	1.01
1093745--1093798	21	2.6	21	82	5	65	37	29	14	18	1.91
1093763--1093843	42	2.0	41	82	2	99	35	29	12	22	1.91
1094035--1094133	42	2.3	41	86	6	128	19	20	33	27	1.96
1095654--1095691	20	1.9	20	88	0	58	18	13	21	47	1.82
1096198--1096350	20	7.5	20	73	10	96	26	13	28	32	1.94
1099840--1099901	18	3.2	20	70	25	62	22	12	0	64	1.27
1104515--1104744	112	2.1	112	91	0	381	28	16	19	36	1.93
1110137--1110167	12	2.6	12	100	0	62	32	0	9	58	1.31
1110282--1110349	21	3.2	21	64	15	59	35	4	7	52	1.49
1111433--1111510	15	5.2	14	77	11	66	61	11	0	26	1.30
1111436--1111474	20	2.0	20	90	10	62	66	7	0	25	1.18
1111427--1111480	15	3.0	19	71	23	62	64	9	0	25	1.23
1113274--1113334	15	3.9	15	74	16	52	9	26	0	63	1.25
1113283--1113323	21	2.0	21	85	9	57	9	24	0	65	1.22
1113955--1113995	3	13.7	3	84	0	55	31	36	2	29	1.71
1119350--1119509	81	2.0	81	83	0	203	18	5	32	43	1.74
1121045--1121123	39	2.0	39	92	4	133	48	13	3	34	1.61
1122850--1122892	20	2.1	21	95	4	79	39	0	0	60	0.97
1123031--1123071	21	1.9	22	90	5	66	41	2	0	56	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1128259--1128297	20	2.0	20	84	0	51	38	5	23	33	1.77
1131639--1131694	19	2.8	20	86	8	78	42	14	21	21	1.88
1131891--1131946	19	2.8	20	86	8	78	42	14	21	21	1.88
1132666--1133129	230	2.0	228	88	0	703	36	9	19	35	1.84
1134619--1134650	12	2.7	12	100	0	64	59	0	34	6	1.23
1134619--1134664	24	1.9	24	82	8	58	60	0	30	8	1.26
1140410--1140455	21	2.2	21	88	3	67	32	15	8	43	1.77
1140472--1140516	21	2.1	21	87	4	63	46	17	13	22	1.83
1140612--1140661	26	1.9	26	87	0	73	28	10	22	40	1.86
1141942--1142022	35	2.3	35	87	2	128	30	22	16	30	1.95
1142417--1142616	55	3.6	55	93	0	319	29	21	20	30	1.98
1142587--1142649	33	1.9	33	93	0	108	26	14	23	34	1.93
1142532--1142709	88	2.0	89	98	1	349	29	17	21	30	1.97
1142620--1142743	55	2.3	55	90	2	196	29	20	20	29	1.98
1142477--1142743	143	1.9	143	92	1	446	29	20	20	29	1.98
1149009--1149063	22	2.7	20	75	10	56	32	16	23	27	1.96
1148932--1149109	95	1.9	96	83	5	236	33	16	23	26	1.96
1149085--1149129	19	2.4	19	100	0	90	33	20	28	17	1.95
1149508--1149827	55	5.8	55	89	0	462	29	21	18	29	1.97
1156142--1156204	13	4.8	13	86	0	81	31	17	22	28	1.96
1156138--1156229	39	2.3	41	78	10	111	31	15	20	32	1.94
1158312--1159350	226	4.6	226	88	2	1500	33	15	14	36	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1158420--1159249	118	7.3	117	68	12	501	33	15	14	37	1.87
1158312--1159350	451	2.3	452	90	2	1606	33	15	14	36	1.87
1159172--1159522	172	2.0	172	91	1	560	34	14	13	37	1.85
1158950--1159748	398	2.0	396	92	2	1327	34	15	13	37	1.86
1159344--1159870	226	2.3	226	86	3	724	32	15	14	38	1.87
1160484--1160556	2	36.5	2	100	0	146	50	0	0	49	1.00
1174401--1174604	103	2.0	103	83	0	255	30	20	15	33	1.93
1175907--1176031	64	1.9	65	85	10	177	29	19	22	28	1.98
1178285--1178309	13	1.9	13	100	0	50	52	8	8	32	1.60
1178716--1178768	20	2.7	20	96	0	97	20	24	26	28	1.99
1184076--1184189	20	5.7	20	83	6	113	31	25	18	24	1.97
1184073--1184189	61	1.9	61	85	0	162	33	24	17	23	1.97
1184745--1184789	19	2.4	19	92	0	72	48	26	15	8	1.74
1184785--1184963	19	10.1	19	71	19	136	11	23	20	44	1.84
1184785--1184901	52	2.2	52	92	0	198	11	22	22	44	1.84
1184859--1184914	14	3.6	14	74	21	58	10	25	25	39	1.87
1184841--1184938	33	2.9	33	95	1	169	11	24	23	40	1.87
1187056--1187258	42	4.8	42	79	2	194	22	36	18	23	1.95
1187192--1187258	21	3.2	21	66	6	55	23	35	20	19	1.95
1187053--1187228	84	2.1	84	97	0	343	21	37	17	23	1.94
1187053--1187258	84	2.5	84	91	1	288	21	36	18	23	1.95
1188616--1188651	14	2.6	14	95	0	63	30	0	25	44	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1188812--1188962	19	8.7	19	63	21	71	15	22	19	41	1.90
1188816--1188942	33	3.9	32	85	8	184	15	22	18	42	1.89
1188809--1188941	66	2.0	66	95	0	239	17	22	18	41	1.90
1191234--1191270	12	3.1	12	100	0	74	0	27	0	72	0.84
1191445--1191498	24	2.2	24	90	0	81	40	20	16	22	1.91
1192283--1192334	21	2.5	21	87	3	70	38	17	23	21	1.93
1192319--1192410	20	4.6	20	73	2	76	39	21	18	20	1.93
1192624--1192711	20	4.4	20	78	5	106	40	22	20	15	1.90
1192622--1192738	60	2.0	60	84	3	155	44	19	19	16	1.87
1192738--1192805	19	3.8	19	83	12	92	14	22	16	47	1.82
1192942--1192978	14	2.6	14	86	0	56	48	21	0	29	1.50
1194848--1194915	20	3.5	19	82	6	82	36	23	23	16	1.94
1194904--1194960	14	3.7	14	75	20	60	50	22	15	10	1.74
1194888--1194980	33	2.8	33	96	1	170	47	21	18	12	1.82
1195014--1195071	14	3.9	14	75	16	62	10	17	22	50	1.76
1194997--1195087	32	2.8	33	91	3	157	12	18	20	48	1.80
1195072--1195115	20	2.2	20	88	4	63	18	25	20	36	1.95
1195608--1195652	18	2.5	18	88	0	72	13	15	44	26	1.83
1196972--1197030	20	3.0	20	87	0	73	42	22	18	16	1.89
1197293--1197336	22	2.0	22	90	0	70	20	15	43	20	1.88
1197504--1197638	20	6.7	20	80	7	121	24	17	24	33	1.96
1197504--1197641	61	2.3	61	85	0	195	23	17	23	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1197504--1197659	61	2.6	61	82	2	161	23	19	23	33	1.97
1198225--1198431	64	3.2	63	76	11	206	27	17	22	31	1.97
1209213--1209265	23	2.2	23	83	10	61	60	9	3	26	1.45
1213429--1213826	198	2.0	198	100	0	796	29	17	18	34	1.94
1227172--1227209	16	2.4	17	82	8	53	60	0	2	36	1.11
1227290--1227338	24	2.0	26	84	8	66	44	6	4	44	1.47
1227315--1227511	72	2.7	72	87	3	272	40	11	3	44	1.57
1227306--1227512	36	5.7	36	78	10	226	39	11	3	45	1.58
1228414--1228442	2	15.0	2	92	7	51	51	0	0	48	1.00
1231829--1231872	16	2.8	16	100	0	88	20	22	27	29	1.99
1232335--1232411	33	2.4	32	89	4	127	44	15	9	31	1.78
1232400--1232441	21	2.0	21	95	0	75	45	9	16	28	1.79
1239936--1240008	32	2.3	32	79	9	80	42	15	10	31	1.81
1247375--1247461	34	2.6	34	92	3	142	12	16	40	31	1.85
1250573--1250645	23	3.2	23	90	0	110	39	17	4	38	1.69
1250176--1252049	489	3.8	489	96	0	3384	40	10	7	40	1.69
1251062--1251134	23	3.2	23	90	0	110	39	20	5	34	1.76
1251551--1251623	23	3.2	23	92	0	119	38	21	5	34	1.77
1257599--1257647	22	2.1	24	85	7	66	44	6	2	46	1.39
1258938--1259002	29	2.2	29	83	0	85	35	6	9	49	1.60
1259077--1259140	29	2.2	29	86	5	94	35	6	9	48	1.61
1258809--1259210	139	3.0	136	84	4	499	35	10	11	42	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1259577--1259652	35	2.2	35	90	4	118	39	22	1	36	1.63
1260050--1260297	130	1.9	130	92	0	415	36	15	12	35	1.86
1260068--1260328	130	2.0	129	81	4	301	39	13	13	33	1.84
1260739--1260772	16	2.0	18	88	11	54	64	5	2	26	1.30
1260825--1260884	22	2.7	21	77	10	57	43	3	3	50	1.35
1261028--1261376	176	2.0	177	99	0	691	33	12	21	32	1.91
1261860--1261927	30	2.3	29	87	2	100	25	8	27	38	1.85
1261871--1261936	29	2.2	30	86	2	89	30	9	22	37	1.85
1262318--1262436	60	2.2	53	80	18	131	42	16	20	20	1.89
1262337--1262456	60	2.0	60	100	0	240	38	18	20	23	1.93

Tables:   1   2   3   4   5   6   7   8