genome.fa.s8180.2.7.7.80.10.50.1000.6.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: VEPZ01008180.1 Hibiscus syriacus cultivar Beakdansim tig00110777_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2670214

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   

This is table  6  of  14  ( 1585 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)
1081200--1081265	22	3.3	22	70	27	74	63	6	3	27	1.32
1081206--1081271	20	3.5	20	72	19	77	66	6	3	24	1.28
1081223--1081303	19	4.6	16	72	23	56	66	3	3	25	1.25
1082552--1082626	3	25.0	3	83	5	82	69	0	1	29	0.97
1082599--1082625	13	2.1	13	100	0	54	85	0	0	14	0.61
1082752--1083301	73	7.5	73	89	4	786	32	20	19	28	1.96
1083962--1084016	22	2.5	22	96	0	101	40	14	10	34	1.81
1094257--1094549	140	2.1	141	79	10	304	48	6	6	38	1.55
1094626--1094668	22	2.0	21	86	13	61	65	4	0	30	1.13
1094626--1094680	23	2.4	22	82	17	67	65	5	1	27	1.25
1095984--1096019	16	2.3	16	90	4	56	66	0	2	30	1.06
1096501--1096555	29	1.9	28	88	3	83	29	21	12	36	1.91
1096581--1096687	50	2.1	50	78	0	115	17	34	25	22	1.96
1097013--1097218	100	2.0	101	97	0	387	34	8	11	45	1.70
1098773--1098810	18	2.1	18	100	0	76	31	31	15	21	1.94
1103004--1103130	50	2.5	50	79	5	148	23	29	30	16	1.96
1104595--1104820	103	2.2	103	91	3	373	26	12	23	36	1.91
1104828--1104891	23	2.8	23	90	4	103	20	25	26	28	1.99
1110998--1111158	64	2.5	63	84	7	182	34	18	20	26	1.95
1111619--1111836	103	2.1	103	97	0	409	25	12	24	37	1.91
1111853--1111915	23	2.7	23	87	4	92	20	26	26	25	1.99
1115482--1115513	16	2.0	16	100	0	64	31	0	6	62	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1120527--1120582	21	2.7	21	94	0	94	23	19	21	35	1.96
1122198--1122261	23	2.8	23	85	0	101	17	25	25	32	1.96
1125374--1125429	27	2.0	28	82	3	69	50	0	1	48	1.11
1125470--1125536	27	2.3	30	80	12	77	58	1	0	40	1.07
1125685--1125720	2	18.5	2	88	5	56	47	0	0	52	1.00
1125760--1125844	27	3.1	25	75	14	71	65	5	3	24	1.31
1127241--1127306	3	22.3	3	75	9	64	60	0	1	37	1.06
1128359--1128456	18	5.9	18	72	18	95	28	31	21	18	1.97
1128313--1128438	46	2.7	46	91	4	191	33	30	18	18	1.95
1129914--1129968	10	5.3	10	74	8	56	32	12	9	45	1.74
1129912--1129968	21	2.7	21	100	0	114	31	12	8	47	1.72
1129924--1129962	11	3.6	11	79	6	53	25	15	10	48	1.76
1132788--1132823	18	2.0	18	100	0	72	27	33	22	16	1.95
1134280--1134336	21	2.7	21	94	0	96	29	12	8	49	1.70
1134280--1134330	11	4.8	11	78	7	61	25	13	9	50	1.72
1136819--1136860	15	2.7	15	88	7	57	54	0	0	45	0.99
1137120--1137229	45	2.4	46	80	4	132	33	22	21	21	1.97
1137018--1137651	121	5.2	121	91	0	980	32	21	21	24	1.98
1137253--1137356	45	2.3	45	86	0	145	30	21	23	25	1.99
1137374--1137477	45	2.3	45	85	3	138	32	19	23	25	1.97
1137018--1137651	244	2.6	242	92	0	1007	32	21	21	24	1.98
1137485--1137593	45	2.4	45	84	3	128	32	21	22	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1138322--1138376	22	2.5	22	90	0	92	40	16	10	32	1.83
1139648--1139890	75	3.3	74	80	8	280	30	18	14	37	1.91
1142743--1142798	29	1.9	29	96	0	103	23	17	14	44	1.85
1143298--1143337	8	4.8	8	88	11	62	0	20	0	80	0.72
1143288--1143337	26	1.9	26	95	0	91	2	18	0	80	0.82
1143288--1143340	10	5.7	10	88	8	69	1	18	0	79	0.83
1143298--1143337	18	2.4	16	91	8	62	0	20	0	80	0.72
1148173--1148217	21	2.1	22	91	4	74	22	37	22	17	1.94
1154011--1154048	20	1.9	20	94	0	67	26	31	26	15	1.96
1158816--1158878	27	2.2	30	86	8	87	57	1	0	41	1.08
1160758--1160790	2	16.5	2	100	0	66	48	0	0	51	1.00
1162681--1162741	24	2.5	24	100	0	122	24	26	19	29	1.99
1162973--1163048	30	2.6	30	85	2	91	17	25	21	36	1.94
1168726--1168769	19	2.5	17	81	7	52	29	0	15	54	1.42
1173987--1174054	23	3.0	23	77	0	73	22	22	22	33	1.97
1174177--1174220	23	1.9	23	100	0	88	38	0	18	43	1.50
1176750--1176921	75	2.3	76	87	2	242	19	22	28	29	1.98
1176824--1176862	20	2.0	20	94	0	69	12	25	33	28	1.93
1177565--1177597	14	2.3	15	85	15	52	42	15	15	27	1.86
1180171--1180204	14	2.3	15	95	5	61	20	26	20	32	1.97
1183415--1183454	21	1.9	21	90	10	64	32	7	5	55	1.50
1185369--1185432	21	3.1	21	88	4	103	7	17	43	31	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1185369--1185432	20	3.2	20	90	2	101	7	17	43	31	1.77
1185368--1185444	20	3.8	20	84	5	66	9	19	38	32	1.83
1185561--1185602	20	2.2	20	95	4	77	14	23	35	26	1.93
1187207--1187255	12	3.9	13	75	20	50	69	4	6	20	1.27
1187210--1187249	12	3.3	12	82	10	55	70	5	5	20	1.26
1187210--1187260	24	2.2	23	86	10	68	72	3	7	15	1.23
1191064--1191098	17	2.1	17	100	0	70	37	22	22	17	1.94
1193486--1193530	22	2.0	22	100	0	90	26	24	4	44	1.72
1193814--1193863	12	3.9	13	77	15	59	72	4	4	20	1.18
1193815--1193850	18	2.0	18	88	0	54	75	2	2	19	1.06
1194759--1194786	12	2.3	12	100	0	56	85	0	7	7	0.73
1195617--1195678	19	3.2	20	88	8	94	9	19	0	70	1.14
1195779--1195813	18	1.9	18	94	0	61	31	20	5	42	1.75
1198767--1198833	23	2.9	23	84	0	80	37	19	7	35	1.80
1199080--1199240	87	1.9	87	91	0	268	45	9	11	32	1.74
1202763--1202883	45	2.7	45	76	0	134	35	33	17	14	1.89
1202795--1202884	39	2.3	39	84	0	108	35	30	17	16	1.93
1212471--1212517	18	2.5	19	86	3	60	63	0	0	36	0.94
1219704--1219742	14	2.7	14	88	11	53	56	0	0	43	0.99
1221266--1221476	66	3.3	63	78	13	198	30	22	18	27	1.98
1221448--1221496	19	2.6	19	84	9	57	24	28	20	26	1.99
1228905--1228948	21	2.1	21	86	0	61	9	40	15	34	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1229527--1229551	13	1.9	13	100	0	50	40	0	16	44	1.47
1229701--1229764	28	2.3	28	97	0	119	40	0	26	32	1.56
1230156--1230208	19	2.8	19	94	0	88	28	32	16	22	1.96
1230311--1230359	19	2.6	19	84	9	57	24	28	20	26	1.99
1231372--1231466	42	2.3	42	94	0	163	16	17	18	46	1.85
1231682--1231731	21	2.3	23	86	10	70	46	0	0	54	1.00
1231682--1231736	11	5.1	12	71	22	50	47	0	0	52	1.00
1231665--1231727	23	2.6	25	78	19	71	50	0	0	49	1.00
1231776--1231892	54	2.2	55	77	13	127	45	1	1	51	1.21
1231859--1231927	19	3.6	18	71	21	52	49	1	1	47	1.19
1231822--1231907	27	3.1	27	71	18	70	47	1	2	48	1.22
1232046--1232096	27	1.9	27	84	11	70	54	0	0	45	0.99
1232428--1232941	81	6.4	81	84	3	644	34	20	9	35	1.86
1232445--1232941	239	2.1	241	87	3	714	33	20	9	36	1.86
1233436--1233505	34	2.1	32	89	5	104	21	31	15	31	1.95
1233790--1233831	21	2.0	21	95	0	75	26	28	21	23	1.99
1234030--1234089	30	2.0	31	90	6	97	41	15	6	36	1.73
1240407--1240537	37	3.7	33	79	14	111	41	17	6	35	1.74
1240406--1240504	37	2.6	38	85	1	119	42	19	6	32	1.75
1240498--1240554	29	2.0	29	89	0	87	38	14	7	40	1.73
1240572--1240876	166	1.9	160	88	8	463	45	9	10	34	1.71
1242699--1242789	47	1.9	47	88	4	139	40	25	4	29	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1245707--1245771	29	2.2	29	91	0	103	43	10	9	36	1.72
1245607--1246021	127	3.4	125	85	10	559	39	11	11	37	1.78
1245455--1246021	241	2.4	233	84	8	686	39	11	11	36	1.79
1245948--1246011	29	2.2	29	91	0	101	45	9	9	35	1.69
1246553--1246615	30	2.1	30	90	0	99	47	11	11	30	1.74
1247165--1247225	3	21.3	3	74	15	58	34	1	3	60	1.23
1261707--1261750	22	2.0	23	86	4	63	34	25	22	18	1.96
1270361--1271018	211	3.1	209	87	6	938	50	7	12	29	1.67
1271106--1271215	2	53.5	2	75	12	89	47	2	3	46	1.34
1271106--1271215	35	3.2	34	76	8	116	47	2	3	46	1.34

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14