genome.fa.s8750.2.7.7.80.10.50.1000.6.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: VEPZ01008750.1 Hibiscus syriacus cultivar Beakdansim tig00111841_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3719443

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  6  of  18  ( 2144 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)
1023865--1023928	23	2.9	22	72	23	62	20	20	28	31	1.97
1023844--1023928	44	1.9	44	90	4	136	21	20	27	31	1.97
1023843--1023915	21	3.4	22	72	22	64	20	19	27	32	1.97
1023865--1023930	21	3.0	21	75	20	64	19	19	27	33	1.96
1025749--1025796	21	2.3	20	82	6	60	33	20	12	33	1.90
1025758--1025800	21	2.1	20	91	4	68	27	20	16	34	1.94
1028789--1028815	1	27.0	1	100	0	54	0	0	0	100	0.00
1031665--1031721	24	2.4	24	93	0	96	22	0	22	54	1.45
1034289--1034342	16	3.6	15	75	9	56	42	11	12	33	1.79
1034510--1034562	21	2.5	21	93	0	88	28	28	22	20	1.99
1034752--1034806	13	4.2	13	75	13	58	49	12	3	34	1.59
1034790--1034889	32	3.2	32	92	2	159	44	15	7	34	1.73
1034884--1034929	21	2.2	21	84	0	56	56	4	10	28	1.53
1041416--1041469	21	2.6	21	93	0	90	24	16	31	27	1.96
1042461--1042498	19	2.0	19	85	10	51	31	7	0	60	1.25
1043681--1043705	13	1.9	13	100	0	50	24	32	20	24	1.98
1047391--1047422	16	2.1	16	94	5	57	65	0	15	18	1.27
1049352--1049391	19	2.1	19	100	0	80	25	7	10	57	1.57
1051735--1052106	184	2.0	185	81	6	430	33	22	16	26	1.96
1053320--1053373	21	2.6	21	90	0	81	31	27	20	20	1.97
1053388--1053483	21	4.6	21	80	7	124	27	22	20	29	1.99
1054076--1054129	6	9.5	6	97	2	87	0	16	53	29	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1054222--1054412	21	8.8	21	83	10	233	39	19	19	20	1.92
1054218--1054381	86	1.9	86	94	0	292	39	19	20	21	1.93
1054221--1054412	86	2.2	85	87	5	278	39	19	19	21	1.93
1054222--1054421	107	1.9	106	93	4	348	39	20	19	21	1.93
1054222--1054421	44	4.6	42	84	7	201	39	20	19	21	1.93
1054222--1054421	65	3.1	63	82	9	237	39	20	19	21	1.93
1057924--1057960	19	1.9	19	94	0	65	27	24	21	27	1.99
1058022--1058168	29	5.1	29	90	2	206	32	4	17	45	1.69
1058028--1058168	57	2.4	58	91	2	230	33	4	15	46	1.68
1062637--1062700	23	2.8	23	85	0	83	29	26	25	18	1.98
1062716--1062933	103	2.1	103	96	0	400	36	23	14	25	1.92
1063720--1063874	64	2.4	63	75	14	156	25	18	22	33	1.97
1068335--1068398	23	2.8	23	85	0	83	26	23	28	21	1.99
1068414--1068631	103	2.1	103	95	0	391	36	23	13	26	1.92
1069412--1069449	19	2.0	19	94	0	67	21	26	23	28	1.99
1069418--1069574	64	2.5	64	78	9	176	26	19	20	34	1.96
1073965--1074156	63	2.9	67	76	13	198	44	5	6	44	1.51
1073912--1074147	131	1.8	130	80	13	288	44	4	6	44	1.51
1074652--1074721	25	2.8	26	70	10	65	50	1	4	44	1.30
1074882--1074936	11	4.9	11	82	4	65	50	0	0	49	1.00
1074889--1074977	8	11.2	8	67	19	53	51	0	1	47	1.08
1074926--1074977	22	2.3	22	90	3	77	51	0	1	46	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1074926--1075032	22	4.9	22	69	18	62	52	0	2	43	1.22
1075003--1075058	26	2.2	27	84	9	73	57	3	3	35	1.34
1085559--1085614	28	2.0	28	93	6	96	41	17	8	32	1.81
1092331--1092362	2	16.0	2	100	0	64	50	0	0	50	1.00
1092897--1092930	14	2.4	14	90	0	50	32	8	14	44	1.76
1093542--1093580	21	1.9	20	84	5	51	41	2	2	53	1.28
1094869--1094927	31	1.9	31	89	6	93	38	16	16	27	1.91
1094868--1094934	31	2.3	28	80	16	75	38	16	17	26	1.91
1102796--1102844	19	2.6	19	90	0	71	22	18	30	28	1.97
1102886--1102940	20	2.6	21	82	5	67	21	23	29	25	1.99
1103473--1103539	22	3.1	22	73	16	68	32	14	20	31	1.93
1105076--1105159	18	4.7	18	82	2	89	21	44	17	16	1.87
1107568--1107655	24	3.7	24	82	0	104	19	11	18	51	1.76
1107556--1107657	48	2.1	48	83	3	125	20	11	16	50	1.76
1112202--1112265	24	2.7	24	80	0	65	23	12	17	46	1.81
1116765--1116842	24	3.2	25	77	10	65	20	16	16	46	1.85
1116802--1116861	12	5.0	12	76	8	59	18	13	18	50	1.78
1116779--1116866	24	3.7	24	83	3	97	20	12	18	48	1.80
1121407--1121470	24	2.7	24	80	0	65	23	12	17	46	1.81
1125855--1125911	24	2.4	25	76	8	64	21	17	14	47	1.82
1130475--1130562	24	3.7	23	81	6	95	19	14	18	47	1.82
1130475--1130557	12	6.9	12	72	10	71	19	15	18	46	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1137135--1137175	16	2.7	16	92	7	68	17	21	12	48	1.79
1141210--1141237	14	2.0	14	100	0	56	21	21	7	50	1.72
1142299--1142460	81	2.0	82	95	1	290	24	16	11	48	1.79
1154171--1154234	30	2.1	30	94	0	110	18	28	7	45	1.77
1156251--1156313	31	2.0	31	96	0	117	33	9	20	36	1.85
1163084--1163190	54	2.0	54	90	3	171	35	19	10	34	1.86
1163360--1163399	2	20.0	2	100	0	80	50	0	0	50	1.00
1166039--1166076	17	2.2	17	86	9	51	76	2	2	18	1.02
1167912--1167953	20	2.1	20	100	0	84	14	28	28	28	1.95
1170402--1170489	24	3.7	24	92	0	131	23	17	21	37	1.94
1174443--1174492	22	2.3	22	89	0	73	26	16	22	36	1.94
1177140--1177185	23	2.0	23	86	0	65	63	10	10	15	1.53
1181274--1181315	13	3.1	14	86	10	61	21	4	0	73	1.01
1191332--1191571	39	5.9	38	76	14	187	43	13	5	37	1.68
1191384--1191546	89	1.8	88	92	1	272	43	13	6	36	1.71
1191717--1191901	58	3.3	56	83	9	225	42	15	9	32	1.79
1192035--1192131	44	2.2	44	83	9	117	39	13	8	39	1.74
1192060--1192146	44	2.0	44	86	8	124	37	13	11	36	1.81
1192900--1192973	23	3.3	22	71	25	57	47	1	0	51	1.09
1192959--1193019	22	2.9	20	73	23	54	36	3	3	57	1.31
1193177--1193243	24	2.8	24	77	16	68	43	4	0	52	1.21
1194980--1195018	17	2.3	17	100	0	78	12	23	46	17	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1195020--1195094	19	3.8	19	74	11	62	29	24	26	20	1.99
1195020--1195094	29	2.5	31	82	8	102	29	24	26	20	1.99
1201361--1201397	7	5.4	7	87	6	58	27	29	27	16	1.97
1201418--1201484	10	6.8	10	75	14	68	26	26	26	19	1.99
1201418--1201504	20	4.4	19	77	13	79	28	25	26	19	1.99
1201410--1201503	29	3.2	28	89	10	136	28	26	26	18	1.98
1202800--1202838	12	2.9	14	81	14	55	56	10	2	30	1.46
1203166--1203198	2	17.0	2	93	6	59	51	0	0	48	1.00
1206378--1206417	17	2.3	18	86	4	55	27	0	5	67	1.11
1214901--1214930	15	1.9	16	93	6	53	16	46	10	26	1.78
1217179--1217235	30	1.9	30	85	0	78	52	1	3	42	1.28
1225100--1225157	25	2.3	25	96	0	107	51	8	5	34	1.55
1225400--1225464	18	3.4	18	80	6	58	43	4	6	46	1.49
1225424--1225516	43	2.3	43	81	10	106	49	4	5	40	1.45
1225530--1225569	8	5.2	8	82	11	57	55	2	10	32	1.47
1225496--1225569	30	2.5	30	77	20	84	56	2	6	33	1.40
1225528--1225570	22	2.0	22	95	0	77	53	2	9	34	1.46
1225894--1225932	4	10.2	4	83	10	55	74	0	0	25	0.82
1225902--1225930	15	1.9	15	100	0	58	68	0	0	31	0.89
1227233--1227265	10	3.2	10	95	4	57	72	0	0	27	0.85
1227314--1227479	73	2.3	72	85	11	216	44	5	4	45	1.46
1227310--1227479	36	4.7	36	81	10	195	44	5	4	45	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1227285--1227481	35	5.5	36	82	11	210	47	5	3	43	1.44
1227265--1227479	72	3.0	72	81	11	235	47	5	3	44	1.41
1227416--1227536	39	3.2	39	82	9	126	42	9	2	45	1.49
1227468--1227550	39	2.2	39	89	10	127	43	9	3	43	1.54
1228092--1229562	167	8.8	166	85	2	1743	24	18	22	33	1.96
1228092--1229562	250	5.9	249	88	1	1879	24	18	22	33	1.96
1234805--1234855	19	2.5	20	84	9	68	78	1	0	19	0.85
1234883--1234961	36	2.3	33	83	12	97	74	1	6	17	1.09
1236212--1236518	35	8.5	34	78	13	235	46	3	3	45	1.40
1236570--1236658	15	5.7	15	75	20	76	56	1	6	35	1.33

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18