genome.fa.s8166.2.7.7.80.10.50.1000.6.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: VEPZ01008166.1 Hibiscus syriacus cultivar Beakdansim tig00110747_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2544747

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

This is table  6  of  10  ( 1195 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)
1075225--1075252	2	14.0	2	100	0	56	50	0	0	50	1.00
1076918--1076942	2	12.5	2	100	0	50	52	0	0	48	1.00
1077950--1078048	51	1.9	51	85	4	137	28	19	11	41	1.85
1078029--1078326	45	6.6	45	88	1	400	24	17	15	42	1.88
1078711--1078762	20	2.5	20	84	6	59	32	15	11	40	1.83
1084845--1085192	45	7.6	45	83	3	385	25	20	13	41	1.89
1084895--1085192	136	2.2	135	85	1	382	25	20	13	40	1.89
1084845--1085187	181	1.9	184	86	4	498	25	19	13	41	1.88
1087083--1087151	30	2.2	30	82	15	86	34	4	17	43	1.69
1087093--1087162	30	2.3	30	90	9	108	34	2	15	47	1.61
1087231--1087393	22	7.7	21	87	10	137	22	36	18	22	1.95
1087254--1087380	8	17.5	8	68	22	52	22	37	17	23	1.94
1087231--1087394	42	3.8	42	83	13	210	21	37	18	22	1.94
1087252--1087394	22	6.7	22	89	9	169	22	36	18	23	1.95
1090690--1090758	30	2.2	30	82	15	86	33	5	18	42	1.75
1090699--1090758	29	2.0	30	90	6	95	31	6	18	43	1.76
1090888--1090930	22	1.9	23	85	4	61	27	30	18	23	1.98
1091121--1091160	20	1.9	22	90	10	66	37	37	10	15	1.80
1103469--1103564	44	2.2	44	82	0	111	34	12	19	33	1.90
1104679--1105135	194	2.4	192	80	5	481	36	11	12	38	1.80
1113062--1113242	94	1.9	95	88	3	276	32	16	26	24	1.96
1113683--1113981	55	5.4	55	86	1	375	36	15	18	29	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1114377--1114484	49	2.2	49	91	3	173	34	12	23	29	1.92
1114426--1115286	68	12.7	68	86	1	1134	31	13	24	30	1.93
1115317--1115430	45	2.5	45	86	1	156	48	7	20	23	1.75
1118954--1119128	94	1.9	95	85	8	250	33	16	24	25	1.96
1119552--1119869	55	5.8	55	86	0	424	33	17	20	28	1.96
1120252--1120843	68	8.7	68	88	1	875	31	15	23	29	1.95
1120875--1121026	45	3.3	45	82	2	178	45	9	20	25	1.80
1122171--1122207	14	2.6	14	95	0	65	48	0	37	13	1.43
1122688--1122722	2	17.5	2	100	0	70	51	0	0	48	1.00
1122981--1123056	2	38.0	2	100	0	152	50	0	0	50	1.00
1124528--1124699	94	1.8	94	89	2	274	34	15	25	25	1.95
1124528--1124745	94	2.3	94	84	4	244	35	15	24	24	1.94
1125118--1125383	55	4.8	55	90	0	424	33	17	22	27	1.96
1125754--1126286	68	7.9	68	88	1	784	32	14	23	30	1.94
1125754--1126286	203	2.6	203	87	3	786	32	14	23	30	1.94
1126322--1126393	22	3.2	22	67	11	65	45	8	22	23	1.79
1126307--1126477	45	3.8	46	80	5	195	43	7	21	26	1.79
1126302--1126471	91	1.9	91	81	4	209	45	8	20	26	1.79
1130154--1130211	23	2.6	23	80	2	64	24	24	29	22	1.99
1137372--1137453	21	3.8	21	82	9	85	21	32	17	28	1.96
1137616--1137655	20	1.9	22	90	10	66	37	35	10	17	1.83
1138791--1138827	19	1.9	19	88	0	56	40	8	16	35	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1139963--1140002	21	1.9	21	89	0	62	30	10	10	50	1.69
1140225--1140287	23	2.9	21	79	9	72	23	34	15	25	1.95
1140448--1140487	20	1.9	22	90	10	66	37	40	10	12	1.77
1140700--1140771	34	2.1	34	82	7	85	31	15	26	26	1.95
1149356--1149425	36	1.9	36	91	0	113	14	11	32	41	1.81
1150612--1150638	2	13.5	2	100	0	54	51	0	0	48	1.00
1150801--1150826	3	8.7	3	100	0	52	0	30	0	69	0.89
1152025--1152049	2	12.5	2	100	0	50	0	52	0	48	1.00
1152512--1152551	17	2.4	17	95	0	71	30	22	17	30	1.97
1153869--1153925	17	3.3	16	76	11	51	68	0	1	29	1.00
1154276--1154326	22	2.5	20	81	15	52	33	5	1	58	1.33
1155302--1155359	20	2.9	20	92	0	89	39	17	20	22	1.92
1155350--1155394	20	2.3	20	92	3	74	46	20	13	20	1.83
1155925--1155963	20	2.0	20	89	0	60	53	20	12	12	1.71
1155925--1155993	34	2.0	35	83	13	90	52	21	14	11	1.73
1155991--1156052	20	3.2	20	84	6	74	14	17	17	50	1.79
1157849--1157897	21	2.3	21	85	0	62	22	18	28	30	1.97
1158180--1158255	21	3.6	21	89	0	107	23	36	18	21	1.95
1159900--1159935	18	2.0	18	94	0	63	19	2	22	55	1.56
1161995--1162019	3	8.3	3	100	0	50	0	36	0	64	0.94
1162988--1163026	15	2.5	15	83	4	51	66	0	5	28	1.12
1163219--1163295	20	3.8	20	69	16	61	37	11	23	27	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1163287--1163353	20	3.2	20	75	10	64	34	14	25	25	1.94
1163287--1163367	20	4.0	20	73	12	58	32	14	24	28	1.95
1163288--1163373	41	2.1	41	85	8	113	32	13	25	27	1.94
1163350--1163391	20	2.1	20	86	0	57	33	9	26	30	1.88
1163875--1163927	14	3.7	14	75	5	52	54	1	18	24	1.54
1163968--1164054	29	3.0	29	75	8	77	55	2	17	25	1.54
1164041--1164136	30	3.2	30	82	4	97	56	2	18	22	1.52
1164953--1165002	23	2.2	23	92	0	82	32	8	22	38	1.83
1165398--1165533	73	1.9	72	85	10	188	27	22	16	33	1.95
1170041--1170087	3	15.7	3	90	0	76	29	31	4	34	1.77
1171581--1172119	201	2.7	201	95	0	970	31	17	14	35	1.91
1174116--1174181	33	2.0	33	93	0	114	22	46	0	30	1.52
1174215--1174279	21	3.1	21	88	0	94	15	27	10	46	1.79
1176479--1176536	20	2.9	19	80	9	71	20	15	10	53	1.71
1177528--1177572	23	1.9	24	81	4	56	28	4	17	48	1.66
1177607--1177678	31	2.3	32	90	4	119	20	15	25	38	1.92
1185037--1185089	19	2.8	19	97	0	97	30	30	16	22	1.96
1185057--1185199	65	2.2	63	86	7	198	30	23	19	26	1.98
1188667--1188775	42	2.5	42	91	5	164	37	16	22	23	1.93
1189862--1189892	3	10.3	3	100	0	62	67	0	0	32	0.91
1190360--1190405	20	2.3	19	85	14	58	50	8	15	26	1.73
1202161--1203542	233	5.9	231	87	2	1892	33	17	16	32	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1202194--1203539	465	2.9	465	90	1	2049	33	17	16	32	1.92
1211912--1211939	2	14.0	2	100	0	56	50	0	0	50	1.00
1213479--1213510	3	10.7	3	100	0	64	65	0	0	34	0.93
1215282--1215473	18	10.8	17	78	10	170	28	10	29	32	1.90
1215282--1215495	36	6.0	35	79	6	189	28	9	28	33	1.89
1215284--1215473	54	3.5	52	79	9	211	28	10	28	32	1.89
1215439--1215493	17	3.2	17	76	5	56	30	9	21	38	1.85
1215410--1215493	35	2.4	35	87	2	114	29	9	23	36	1.87
1215338--1215506	18	9.4	18	75	2	74	27	8	27	35	1.87
1217285--1217398	40	2.8	40	85	2	129	25	4	23	46	1.71
1218879--1219003	67	1.9	67	89	1	198	47	19	4	28	1.70
1218885--1219042	67	2.4	64	80	7	167	48	18	5	27	1.69
1221131--1221182	22	2.5	22	78	6	54	51	3	0	44	1.19
1223897--1223929	16	2.1	16	94	0	57	18	36	15	30	1.91
1224316--1224382	24	2.8	25	80	13	70	11	26	0	61	1.31
1224908--1225416	41	12.3	41	82	2	534	28	19	17	33	1.95
1224860--1225416	125	4.5	122	78	5	492	28	19	17	34	1.95
1224889--1225416	166	3.2	166	88	1	774	28	19	17	34	1.95
1224908--1225416	207	2.4	207	82	3	612	28	19	17	33	1.95
1228306--1228676	43	8.7	43	77	10	285	22	21	21	34	1.97
1228306--1228628	85	3.8	86	81	4	343	22	21	21	34	1.97
1228321--1228625	128	2.4	128	77	6	303	23	21	20	34	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1228321--1228676	128	2.8	125	75	11	299	23	22	20	34	1.97
1230090--1230154	32	2.0	32	85	5	87	38	13	16	30	1.88
1231332--1231480	77	1.9	79	82	8	189	40	8	5	44	1.58
1232498--1232534	16	2.3	16	95	0	65	27	27	10	35	1.90
1235608--1235644	18	2.1	17	90	5	56	51	13	2	32	1.55
1236296--1236397	29	3.5	29	94	0	177	37	22	9	30	1.87
1237663--1237689	2	13.5	2	100	0	54	48	0	0	51	1.00
1242337--1242459	60	2.0	60	84	3	158	16	22	29	31	1.96
1242359--1242495	56	2.4	58	84	7	172	13	26	29	30	1.94
1245158--1245196	20	2.0	20	90	5	62	53	0	2	43	1.14

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