genome.fa.s8985.2.7.7.80.10.50.1000.7.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: VEPZ01008985.1 Hibiscus syriacus cultivar Beakdansim tig00112349_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1528252

Tables:   1   2   3   4   5   6   7   8   9   

This is table  7  of  9  ( 976 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)
1091383--1091434	23	2.3	22	81	12	61	1	34	0	63	1.06
1091378--1091439	20	3.3	19	80	10	74	1	38	0	59	1.07
1091557--1091594	20	1.9	20	94	0	67	31	13	21	34	1.91
1091671--1091748	28	2.8	28	86	2	102	23	28	32	16	1.96
1097285--1097700	35	11.8	35	82	7	452	44	3	9	42	1.52
1097291--1097699	104	3.9	105	88	4	513	45	3	9	42	1.51
1097285--1097691	68	5.8	69	84	6	441	44	3	9	42	1.53
1097588--1097612	12	2.1	12	100	0	50	52	0	0	48	1.00
1097722--1097779	4	14.5	4	79	16	59	20	3	0	75	0.94
1097722--1097779	9	7.2	8	78	18	59	20	3	0	75	0.94
1100702--1100765	21	3.0	22	86	9	96	28	14	32	25	1.94
1101646--1101684	16	2.4	16	95	0	69	33	15	23	28	1.95
1102027--1102463	36	12.6	35	78	12	395	44	2	9	43	1.52
1102492--1102547	9	5.3	10	76	23	53	21	3	0	75	0.96
1104946--1105074	39	3.0	44	83	13	187	29	7	19	43	1.79
1106184--1106241	24	2.4	24	80	5	73	18	6	8	65	1.43
1107469--1107615	73	2.0	73	85	2	197	31	19	14	34	1.92
1110358--1110418	30	2.0	30	90	0	95	37	16	24	21	1.93
1111063--1111099	2	18.5	2	100	0	74	51	0	0	48	1.00
1116775--1116799	9	2.8	9	100	0	50	12	8	8	72	1.29
1118970--1119099	67	1.9	67	85	0	179	38	23	21	16	1.93
1121786--1121898	36	3.1	35	76	8	111	23	20	15	40	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1121803--1121900	36	2.7	36	85	3	135	24	21	12	41	1.87
1121873--1121925	21	2.6	21	84	3	72	28	18	9	43	1.81
1121892--1122194	65	4.7	64	70	14	228	26	20	12	39	1.89
1121992--1122038	20	2.3	21	88	3	69	23	21	12	42	1.87
1122010--1122249	36	6.9	36	78	9	138	25	19	13	41	1.88
1122010--1122392	137	2.8	138	85	5	483	26	19	13	40	1.89
1122180--1122247	21	3.5	21	66	22	58	23	17	13	45	1.84
1122045--1122230	101	1.8	101	90	0	300	25	19	13	41	1.88
1122136--1122264	36	3.6	36	92	2	197	24	17	14	42	1.87
1122182--1122367	102	1.8	103	87	5	279	27	19	12	40	1.87
1122604--1122999	131	3.0	131	88	2	557	31	20	18	29	1.96
1122727--1122906	44	4.1	43	67	8	130	31	20	19	28	1.97
1122750--1122943	44	4.5	44	70	3	133	32	21	19	26	1.97
1124409--1124473	25	2.7	22	73	19	58	20	1	3	75	1.02
1124416--1124473	25	2.3	24	78	16	64	20	1	3	74	1.06
1124429--1124473	24	2.0	24	86	8	67	22	2	2	73	1.05
1127984--1128060	29	2.6	29	83	6	91	19	20	18	41	1.90
1127999--1128056	29	2.0	29	93	0	98	18	17	17	46	1.84
1133222--1133257	14	2.6	14	90	0	54	52	11	2	33	1.51
1137752--1137801	16	3.2	16	75	11	50	60	2	8	30	1.37
1137891--1138085	13	14.4	13	66	24	61	48	3	3	44	1.35
1137892--1137950	18	3.2	19	82	17	72	50	3	1	44	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1137917--1137970	18	2.9	18	84	10	65	48	5	1	44	1.37
1137922--1137980	18	3.2	18	80	9	57	49	5	1	44	1.34
1137958--1138078	28	4.5	27	75	12	90	47	3	4	44	1.41
1138053--1138086	2	17.5	2	93	6	61	47	0	0	52	1.00
1138200--1138252	19	2.8	19	73	0	61	49	0	24	26	1.51
1138327--1138355	15	1.9	15	100	0	58	44	0	0	55	0.99
1138713--1138760	2	25.0	2	91	8	82	50	0	0	50	1.00
1138716--1138782	29	2.3	29	80	10	66	50	5	1	41	1.36
1138808--1138880	6	11.3	6	73	12	56	39	38	0	21	1.54
1138807--1138882	7	11.6	7	73	17	56	40	38	0	21	1.53
1138814--1138876	26	2.4	25	87	10	83	39	38	0	22	1.54
1138814--1138882	13	5.2	13	78	18	72	40	37	0	21	1.54
1138905--1138945	20	2.2	19	83	12	50	48	7	7	36	1.59
1138923--1138968	15	3.3	14	85	8	67	50	8	2	39	1.46
1139050--1139088	20	2.0	20	84	0	51	46	23	0	30	1.53
1139473--1139508	15	2.4	15	90	9	56	50	5	0	44	1.25
1139611--1139639	13	2.2	13	100	0	58	48	20	0	31	1.50
1139995--1140045	20	2.4	21	74	9	59	45	5	9	39	1.62
1140136--1140175	20	2.0	21	90	5	64	45	27	2	25	1.66
1140159--1140209	7	7.4	7	75	4	50	49	31	0	19	1.49
1140141--1140210	27	2.6	27	77	8	79	47	30	0	22	1.52
1140141--1140209	20	3.4	20	78	6	59	47	30	0	21	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1140158--1140209	14	3.8	14	74	5	61	50	30	0	19	1.48
1140568--1140603	16	2.2	16	100	0	72	55	5	5	33	1.46
1140612--1140637	2	13.0	2	100	0	52	0	50	0	50	1.00
1140637--1140672	2	18.0	2	100	0	72	50	0	0	50	1.00
1140744--1140787	21	2.1	21	86	0	61	52	25	0	22	1.48
1140037--1141206	611	2.0	586	87	7	1703	42	12	8	36	1.73
1141103--1141148	22	2.0	23	87	4	67	41	0	0	58	0.98
1141167--1141205	2	19.0	2	94	5	69	48	0	2	48	1.15
1141278--1141326	7	7.3	7	77	9	57	46	36	2	14	1.56
1141278--1141326	13	3.7	13	83	8	55	46	36	2	14	1.56
1141484--1141527	23	1.9	23	95	0	79	50	4	2	43	1.35
1142294--1142353	31	1.9	31	100	0	120	26	13	13	46	1.80
1144708--1144806	45	2.2	44	85	5	128	13	17	8	61	1.54
1149006--1149046	21	2.0	21	90	9	68	31	4	31	31	1.79
1150023--1150104	44	1.9	43	92	5	139	13	17	12	57	1.65
1150022--1150117	44	2.2	45	85	10	137	12	17	10	59	1.60
1155324--1155358	11	3.0	12	91	4	54	40	5	2	51	1.40
1179162--1179231	20	3.5	20	73	9	54	37	11	24	27	1.89
1181393--1181438	24	1.9	24	95	0	83	32	23	10	32	1.90
1186245--1186288	23	1.9	23	90	0	70	29	27	27	15	1.96
1187678--1187709	3	11.0	3	93	6	57	68	0	31	0	0.90
1188350--1188403	28	2.0	27	82	10	65	44	3	1	50	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1188387--1188457	22	3.2	22	67	13	56	45	4	2	47	1.36
1211699--1211747	20	2.5	20	89	0	80	30	32	8	28	1.86
1224617--1224904	144	2.0	145	96	0	533	31	12	23	32	1.92
1225370--1225408	20	2.0	20	89	0	60	33	10	23	33	1.88
1229255--1229304	20	2.5	20	93	0	91	30	18	20	32	1.96
1235806--1235848	21	2.0	21	90	0	68	34	11	25	27	1.91
1235885--1235938	20	2.8	19	77	5	54	22	16	24	37	1.94
1237804--1237858	12	4.7	12	84	6	69	1	23	1	72	1.04
1239289--1239366	20	3.9	19	80	11	93	21	19	24	34	1.96
1239290--1239367	41	1.9	41	94	0	138	21	17	25	34	1.96
1244179--1244260	35	2.3	35	84	12	105	57	9	4	28	1.51
1244778--1244831	26	2.1	26	100	0	108	29	3	37	29	1.75
1245928--1245973	24	1.9	24	95	0	83	15	0	30	54	1.41
1250638--1250676	21	1.9	20	94	5	69	20	12	17	48	1.80
1258553--1258587	2	17.5	2	100	0	70	48	0	0	51	1.00
1264360--1264400	22	1.9	21	85	5	55	73	2	17	7	1.17
1270461--1270492	12	2.7	12	100	0	64	43	9	21	25	1.82
1275950--1276090	64	2.2	64	100	0	282	20	17	26	35	1.95
1275950--1276160	64	3.3	63	88	5	230	24	16	24	34	1.96
1278831--1278909	23	3.5	22	77	10	81	29	20	22	27	1.98
1281775--1281812	19	2.0	19	100	0	76	26	21	15	36	1.93
1284731--1284886	65	2.4	63	78	9	163	26	16	23	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1294579--1294651	23	3.3	22	75	9	69	49	16	21	12	1.78
1296046--1296101	26	2.1	27	90	6	87	71	3	12	12	1.27
1296063--1296110	19	2.7	18	84	12	55	75	2	12	10	1.14
1296082--1296149	29	2.4	29	80	7	79	76	0	13	10	1.02
1296082--1296147	27	2.5	25	79	18	71	75	0	13	10	1.04
1296166--1296191	8	3.2	8	100	0	52	88	0	0	11	0.52
1297648--1297931	37	7.7	35	83	10	302	46	5	3	44	1.45
1297614--1297942	75	4.4	71	83	12	369	47	6	3	42	1.47
1297622--1297968	37	9.3	35	80	12	290	46	7	3	42	1.49
1299312--1299348	20	1.9	19	89	10	58	45	10	24	18	1.81

Tables:   1   2   3   4   5   6   7   8   9