genome.fa.s7863.2.7.7.80.10.50.1000.6.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: VEPZ01007863.1 Hibiscus syriacus cultivar Beakdansim tig00110234_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1653362

Tables:   1   2   3   4   5   6   7   8   

This is table  6  of  8  ( 912 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)
1068356--1068489	58	2.3	58	85	0	178	20	16	6	56	1.62
1068486--1068629	46	3.1	46	66	15	116	20	15	3	60	1.49
1068477--1068672	95	2.1	95	91	3	315	19	13	4	62	1.48
1069014--1069070	12	4.5	13	75	16	57	35	1	3	59	1.25
1069022--1069072	3	17.0	3	84	8	59	35	1	3	58	1.28
1076951--1077007	12	5.0	12	72	12	57	80	1	10	7	0.96
1076924--1077007	33	2.5	34	88	7	118	77	2	9	10	1.08
1078009--1078175	32	5.2	32	91	2	237	28	13	25	32	1.94
1078274--1078372	34	2.9	34	92	0	153	36	17	11	35	1.85
1078538--1078693	76	2.1	74	80	2	177	32	16	14	35	1.90
1078697--1078873	36	4.9	36	87	0	264	25	24	12	36	1.91
1078722--1078786	21	3.4	21	68	24	70	26	27	9	36	1.87
1078849--1078893	15	3.0	15	86	0	63	26	31	13	28	1.94
1078813--1078911	51	1.9	51	93	0	171	24	26	14	35	1.93
1078864--1078944	36	2.2	36	93	0	135	22	25	13	38	1.91
1078881--1078966	21	4.4	21	66	16	67	23	24	12	39	1.89
1078938--1079085	36	4.0	36	83	2	161	26	19	14	39	1.91
1079023--1079105	39	2.1	39	81	0	94	30	15	13	40	1.85
1079127--1079231	43	2.4	43	91	0	165	28	11	31	28	1.92
1079300--1079879	90	6.4	90	91	1	939	25	18	22	34	1.96
1079300--1079879	181	3.2	181	94	0	1013	25	18	22	34	1.96
1086444--1086716	54	5.0	54	86	3	343	32	16	15	35	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1087498--1087550	26	2.0	26	100	0	106	37	3	35	22	1.72
1091581--1091629	23	2.2	22	89	7	73	75	0	18	6	1.00
1091593--1091669	15	5.1	15	73	17	61	77	2	14	5	1.04
1091582--1091685	22	4.8	21	73	16	61	76	1	13	7	1.07
1091602--1091670	10	7.2	9	72	16	50	79	2	13	4	0.99
1094046--1094080	9	3.9	9	84	0	52	34	14	0	51	1.42
1096153--1097223	259	4.1	259	88	1	1445	32	16	17	33	1.93
1096535--1096640	42	2.5	42	83	1	142	26	22	19	31	1.98
1096797--1096900	41	2.5	42	75	9	115	25	21	23	30	1.99
1097003--1097416	198	2.1	198	87	1	580	28	16	20	34	1.94
1096485--1097937	716	2.0	714	86	2	2006	30	16	18	34	1.92
1096746--1097674	457	2.0	457	85	2	1247	30	15	19	35	1.93
1097201--1098091	259	3.5	255	82	2	1055	31	14	17	36	1.90
1098215--1098289	3	24.7	3	78	8	80	34	0	1	64	1.02
1099226--1099268	22	2.0	22	86	9	61	11	16	4	67	1.38
1102215--1102257	18	2.4	18	88	7	61	23	6	2	67	1.27
1102845--1102959	29	4.0	29	87	0	176	23	15	5	55	1.60
1102845--1102910	15	4.6	14	74	7	51	24	12	6	57	1.57
1102946--1103132	95	2.0	96	92	1	313	18	14	4	62	1.49
1103103--1103148	16	2.9	16	96	0	83	17	15	0	67	1.24
1103457--1103481	13	1.9	13	100	0	50	20	0	0	80	0.72
1105893--1105925	2	16.5	2	100	0	66	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1111218--1111522	85	3.6	85	89	0	475	33	23	18	24	1.97
1111388--1111667	145	1.9	145	91	1	463	33	23	18	24	1.97
1111525--1111862	85	4.0	85	87	1	482	35	21	18	23	1.96
1111307--1111749	230	1.9	230	90	1	710	33	23	18	23	1.97
1111218--1111837	315	2.0	315	90	0	990	33	23	18	24	1.97
1111526--1111857	170	2.0	169	92	1	549	34	21	18	24	1.96
1113709--1113733	2	12.5	2	100	0	50	48	0	0	52	1.00
1113857--1113886	15	1.9	16	93	6	53	23	0	3	73	0.98
1113878--1113905	5	5.6	5	100	0	56	35	0	0	64	0.94
1117081--1117111	16	1.9	16	93	0	53	29	29	9	32	1.89
1118097--1118194	2	51.5	2	80	17	93	48	6	0	44	1.27
1118529--1118561	12	2.8	12	100	0	66	18	15	15	51	1.77
1118560--1118601	20	2.0	21	86	4	59	40	16	4	38	1.70
1125812--1125846	2	17.5	2	100	0	70	48	0	0	51	1.00
1132001--1132058	21	2.5	24	81	10	77	27	29	15	27	1.96
1135671--1135757	43	2.0	43	95	0	156	28	18	11	41	1.85
1136790--1136825	16	2.1	18	90	10	58	30	5	2	61	1.33
1141425--1141452	13	2.2	13	100	0	56	35	14	25	25	1.93
1141760--1141787	7	4.0	7	100	0	56	0	14	28	57	1.38
1150122--1150160	6	6.5	6	96	0	69	17	0	51	30	1.46
1150142--1150259	33	3.6	33	88	4	168	29	2	43	24	1.68
1152161--1152207	24	2.0	24	95	4	87	36	17	29	17	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1152167--1152220	24	2.2	24	87	6	74	31	18	35	14	1.91
1157544--1157570	6	4.5	6	100	0	54	0	51	0	48	1.00
1158230--1158262	13	2.5	13	95	0	57	30	0	0	69	0.88
1165703--1165745	16	2.7	16	77	0	50	51	27	9	11	1.69
1166074--1166106	16	2.1	16	100	0	66	57	24	12	6	1.57
1166080--1166272	90	2.1	92	94	1	336	37	12	12	37	1.81
1166262--1166319	10	6.1	10	71	18	52	60	18	10	10	1.57
1166272--1166322	27	1.9	26	88	4	75	60	19	9	9	1.55
1167712--1167775	32	2.0	32	96	0	119	39	14	6	40	1.71
1167801--1167841	21	2.0	21	90	0	64	31	17	0	51	1.46
1167834--1167865	3	10.7	3	100	0	64	34	0	0	65	0.93
1169837--1169883	22	2.1	22	84	4	58	38	25	2	34	1.68
1180585--1180805	42	5.4	42	74	13	156	33	18	22	26	1.96
1180665--1180806	42	3.5	40	79	14	164	36	19	20	23	1.95
1180699--1180867	42	4.1	41	79	9	173	36	18	15	28	1.92
1180790--1180889	42	2.4	42	83	3	121	37	20	16	27	1.93
1184056--1184100	15	3.1	15	80	6	65	42	6	20	31	1.77
1184103--1184133	14	2.2	14	94	0	53	29	6	16	48	1.70
1184233--1184331	49	2.0	50	80	9	114	47	2	0	50	1.12
1184420--1184482	23	2.7	23	80	5	63	46	1	1	50	1.20
1184458--1184515	20	2.9	20	73	16	57	48	1	0	50	1.11
1184466--1184566	27	3.5	28	72	18	84	48	1	0	49	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1184549--1184606	17	3.2	17	77	22	64	43	0	1	55	1.10
1184800--1184914	42	2.8	41	89	4	167	46	17	15	20	1.84
1189222--1189267	21	2.1	22	84	11	60	69	2	10	17	1.27
1191571--1192204	210	3.0	210	95	0	1106	22	17	25	34	1.96
1191486--1192205	315	2.3	310	91	4	1193	22	18	25	34	1.96
1193048--1193099	1	52.0	1	80	0	59	0	1	7	90	0.53
1193048--1193096	9	5.6	9	85	9	66	0	2	8	89	0.55
1193048--1193098	10	4.9	10	88	7	66	0	1	7	90	0.53
1193048--1193099	17	3.2	16	87	12	72	0	1	7	90	0.53
1193048--1193099	26	2.1	24	89	7	77	0	1	7	90	0.53
1207958--1208023	24	2.8	24	97	2	125	39	21	10	28	1.86
1209098--1209164	30	2.2	29	79	10	71	40	13	11	34	1.81
1212205--1212269	3	21.7	3	100	0	130	66	0	0	33	0.92
1212686--1212798	35	3.2	35	86	7	142	42	20	0	36	1.58
1213815--1213926	35	3.2	34	85	2	143	35	0	21	41	1.59
1216081--1216143	13	4.9	13	73	11	58	50	0	0	49	1.00
1216074--1216184	42	2.7	41	90	8	174	50	0	0	49	1.00
1216061--1216190	38	3.4	38	83	10	165	50	0	0	50	1.00
1216473--1216687	114	1.9	112	83	5	274	36	17	14	31	1.91
1218304--1218333	4	7.5	4	100	0	60	76	0	23	0	0.78
1220679--1220736	3	18.7	3	80	19	66	65	0	3	31	1.09
1220679--1220736	13	4.6	13	81	14	77	65	0	3	31	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1220679--1220735	16	3.6	16	81	13	66	66	0	3	29	1.08
1220892--1221596	134	5.3	134	86	2	844	29	15	21	32	1.94
1222881--1222991	8	13.2	8	76	16	91	5	15	0	79	0.91
1222887--1222996	38	2.9	36	78	9	114	6	15	0	78	0.95
1222954--1222998	8	5.6	8	91	0	72	2	17	0	80	0.82
1222881--1222991	9	12.1	9	71	16	77	5	15	0	79	0.91
1222870--1222999	69	1.9	69	82	6	165	6	16	0	76	0.97
1224369--1224399	16	1.9	16	93	0	53	61	12	9	16	1.56
1225512--1225569	3	19.3	3	85	7	82	65	0	0	34	0.93
1225720--1225821	39	2.6	39	95	1	179	15	23	13	47	1.82

Tables:   1   2   3   4   5   6   7   8