genome.fa.s8087.2.7.7.80.10.50.1000.6.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: VEPZ01008087.1 Hibiscus syriacus cultivar Beakdansim tig00110597_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8279816

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   25   26   27   28   29   30   31   32   
          33   34   35   36   37   

This is table  6  of  37  ( 4336 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)
1128714--1128879	71	2.3	72	91	3	271	12	22	19	45	1.84
1131286--1131339	24	2.2	24	90	0	81	38	20	16	24	1.92
1132377--1132434	20	2.9	20	86	0	89	39	22	20	17	1.92
1132460--1132508	19	2.6	19	100	0	98	14	20	16	48	1.80
1132625--1132661	14	2.6	14	86	0	56	48	21	0	29	1.50
1134529--1134584	20	2.9	19	86	5	85	35	23	25	16	1.94
1134512--1134595	20	4.3	19	78	4	69	40	22	21	15	1.91
1134599--1134634	18	1.9	19	88	5	56	55	22	11	11	1.66
1134653--1134748	19	5.6	17	72	21	78	11	19	22	45	1.82
1134675--1134732	14	3.9	14	79	16	71	8	17	25	48	1.75
1134658--1134748	32	2.8	33	94	3	166	10	18	23	47	1.80
1134721--1134787	20	3.4	19	76	13	64	14	20	23	40	1.90
1135274--1135313	18	2.2	18	90	0	62	12	17	45	25	1.83
1136632--1136690	20	3.0	20	87	0	73	42	22	18	16	1.89
1136953--1136996	22	2.0	22	95	0	79	18	15	45	20	1.85
1137185--1137256	20	3.6	20	85	7	92	29	19	26	25	1.99
1137267--1137318	20	2.5	20	81	3	59	17	25	19	38	1.93
1138116--1138166	24	2.1	24	96	0	93	39	13	21	25	1.90
1138347--1138429	37	2.2	37	93	0	139	14	10	37	37	1.81
1139037--1139099	17	3.6	17	93	2	99	28	28	9	33	1.88
1141942--1141996	27	2.1	26	83	10	67	30	9	12	47	1.73
1143461--1143503	18	2.4	18	85	11	54	25	6	0	67	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1149698--1149750	21	2.5	21	75	6	63	20	24	18	35	1.95
1149740--1149792	20	2.7	20	100	0	106	41	16	20	20	1.90
1149797--1149934	41	3.4	41	76	2	143	35	24	15	23	1.94
1149850--1149908	20	3.0	20	87	0	91	28	28	11	30	1.92
1150101--1150144	22	2.0	22	90	0	70	22	45	13	18	1.84
1150406--1150464	20	3.0	20	84	0	64	16	18	20	44	1.87
1151784--1151831	18	2.7	18	93	0	87	27	45	12	14	1.81
1152370--1152434	20	3.2	20	95	0	112	43	20	21	15	1.88
1152421--1152503	19	4.6	19	79	14	113	45	20	20	13	1.84
1152543--1152635	20	4.7	20	91	0	132	16	24	23	35	1.95
1152581--1152661	20	4.1	19	85	6	81	20	18	25	34	1.96
1152563--1152655	40	2.3	39	83	5	114	17	21	25	35	1.95
1152529--1152655	60	2.1	59	82	4	148	17	22	24	36	1.95
1153001--1153091	41	2.2	42	86	2	130	21	39	15	23	1.91
1154662--1154711	14	3.0	17	75	24	61	48	18	22	12	1.80
1154653--1154706	14	3.5	14	75	22	54	46	20	20	12	1.83
1154738--1154825	20	4.4	20	78	5	106	15	21	22	39	1.91
1154718--1154805	40	2.4	36	81	12	99	15	20	20	43	1.88
1155039--1155088	20	2.5	20	80	0	73	22	18	22	38	1.94
1155994--1156018	12	2.1	12	100	0	50	72	0	28	0	0.86
1158289--1158425	19	7.7	19	75	16	123	42	21	21	14	1.88
1158289--1158426	52	2.6	52	80	7	138	42	21	21	15	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1158309--1158408	33	3.1	32	91	4	164	43	20	22	15	1.88
1158425--1158484	19	3.4	19	69	21	67	15	20	18	46	1.84
1158591--1158627	14	2.6	14	91	0	65	45	24	0	29	1.53
1162582--1162710	33	3.9	33	93	1	195	44	22	22	10	1.84
1162638--1162693	14	3.6	14	74	21	58	42	23	25	8	1.82
1162711--1162755	19	2.4	19	88	0	63	8	15	26	48	1.74
1163310--1163421	20	5.6	20	84	4	82	21	20	20	37	1.94
1163302--1163559	41	6.3	41	70	11	145	28	18	19	32	1.96
1163418--1163473	20	2.7	21	77	5	60	44	16	19	19	1.87
1163411--1163483	21	3.5	21	75	3	67	38	17	20	23	1.93
1163493--1163544	20	2.5	21	87	3	70	21	23	17	38	1.93
1163534--1163586	21	2.5	22	78	6	65	35	18	24	20	1.95
1163634--1163670	19	1.9	19	88	0	56	16	18	29	35	1.93
1168947--1169019	32	2.2	32	83	7	85	36	0	1	61	1.05
1169100--1169139	2	21.0	2	90	10	66	50	0	0	50	1.00
1173709--1173745	16	2.3	16	90	0	56	78	0	13	8	0.96
1176401--1176978	113	4.9	113	82	10	659	39	15	17	26	1.90
1176532--1176978	124	3.7	123	83	10	593	39	15	18	26	1.90
1176654--1176978	122	2.8	113	82	11	374	39	16	18	26	1.91
1179204--1179247	23	1.9	23	85	0	61	47	4	2	45	1.35
1178996--1179251	140	1.8	142	83	9	346	39	5	7	48	1.54
1200576--1200688	56	2.0	56	100	0	226	53	3	7	35	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1202389--1202443	2	28.5	2	92	7	96	52	0	0	47	1.00
1203862--1203902	3	14.0	3	89	5	66	34	0	0	65	0.93
1204637--1204679	21	2.0	21	81	0	50	27	30	25	16	1.97
1205339--1205401	23	2.7	23	90	0	90	19	25	25	30	1.98
1221993--1222071	31	2.5	31	95	0	140	39	21	20	18	1.93
1222637--1222706	36	1.9	36	88	8	106	22	28	28	20	1.98
1224029--1224066	2	19.0	2	100	0	76	50	0	0	50	1.00
1225317--1225348	14	2.3	14	94	0	55	46	9	15	28	1.77
1225961--1226085	31	4.0	31	84	2	162	40	20	17	21	1.92
1233248--1233278	15	2.0	16	93	6	55	70	0	3	25	1.02
1238349--1238415	34	2.0	34	93	0	116	23	41	13	20	1.88
1238404--1238457	29	1.9	28	88	7	83	16	42	24	16	1.88
1238887--1238930	21	2.1	21	91	0	70	29	0	15	54	1.42
1238907--1238960	28	1.9	28	100	0	108	27	0	14	57	1.38
1238936--1239043	50	2.3	49	81	12	129	39	0	11	48	1.45
1241180--1241285	30	3.5	30	86	2	140	47	14	0	38	1.44
1241184--1241238	15	3.6	16	70	20	55	43	14	0	41	1.45
1241467--1241506	21	1.9	21	100	0	80	57	15	0	27	1.38
1242102--1242164	21	3.0	21	84	9	67	58	14	0	26	1.36
1243501--1243540	18	2.1	18	86	9	53	32	7	0	60	1.25
1244876--1244914	9	4.1	9	90	9	60	64	2	2	30	1.21
1246207--1246252	20	2.3	21	77	11	51	26	2	4	67	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1251273--1251299	2	13.5	2	100	0	54	48	0	0	51	1.00
1252507--1252776	133	2.0	133	98	0	522	30	13	17	38	1.88
1256901--1256947	20	2.3	20	100	0	94	21	23	8	46	1.78
1256910--1256954	20	2.2	20	92	0	72	22	28	8	40	1.84
1266907--1266938	13	2.6	13	90	9	50	65	0	0	34	0.93
1274751--1274823	22	3.4	22	72	16	71	53	0	1	45	1.09
1274745--1274852	42	2.6	42	81	15	127	51	0	2	44	1.22
1274831--1274867	15	2.3	17	81	13	51	45	0	0	54	1.00
1281708--1281749	21	2.0	21	95	0	75	23	26	23	26	2.00
1282449--1282549	37	2.7	37	90	0	157	36	21	14	26	1.93
1282773--1282824	26	2.0	27	81	11	63	26	21	5	46	1.74
1282850--1282882	2	17.0	2	93	6	59	48	0	0	51	1.00
1283034--1283067	16	2.1	16	100	0	68	55	14	0	29	1.40
1284327--1284379	20	2.7	20	96	0	97	32	26	20	20	1.98
1285201--1285269	35	2.0	35	82	5	86	26	18	21	33	1.97
1296393--1296425	16	2.0	17	94	5	59	42	6	15	36	1.71
1305814--1305850	2	18.5	2	100	0	74	48	0	0	51	1.00
1307839--1307912	31	2.4	31	84	6	105	47	0	14	37	1.45
1308333--1308386	24	2.2	24	83	6	65	9	16	27	46	1.78
1308343--1308395	14	4.1	14	81	18	69	9	15	24	50	1.73
1308344--1308418	24	3.1	24	88	3	98	12	12	20	56	1.67
1309145--1309218	10	7.7	10	68	23	52	9	12	21	56	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1309151--1309211	16	3.8	16	95	0	113	8	11	22	57	1.60
1309282--1309314	16	2.1	16	100	0	66	6	12	24	57	1.57
1310809--1310846	5	7.8	5	88	5	60	21	55	21	2	1.56
1310843--1310886	7	6.4	7	84	5	63	13	27	31	27	1.94
1310843--1310882	13	3.0	13	85	3	53	12	27	32	27	1.93
1323193--1323243	21	2.5	21	84	6	70	37	19	23	19	1.94
1323232--1323339	20	5.3	20	85	6	119	30	26	18	24	1.98
1323229--1323364	41	3.4	40	80	8	143	33	24	19	22	1.97
1324075--1324128	24	2.2	24	90	0	81	22	16	20	40	1.91
1326582--1326644	18	3.7	18	75	16	71	44	20	23	11	1.83

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   25   26   27   28   29   30   31   32   
          33   34   35   36   37