genome.fa.s8662.2.7.7.80.10.50.1000.6.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: VEPZ01008662.1 Hibiscus syriacus cultivar Beakdansim tig00111662_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1703488

Tables:   1   2   3   4   5   6   7   8   

This is table  6  of  8  ( 848 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)
1115885--1116203	63	5.0	63	90	2	453	44	13	15	26	1.84
1116235--1116361	36	3.5	37	82	4	123	38	10	17	33	1.83
1122268--1122389	21	5.8	21	76	3	120	39	22	14	22	1.91
1122273--1122389	42	2.8	42	80	5	146	41	21	14	23	1.90
1123065--1123130	20	3.6	19	73	23	61	28	24	15	31	1.95
1129277--1129365	42	2.1	42	82	0	106	41	21	13	23	1.88
1129270--1129365	21	4.6	21	73	0	75	41	20	14	22	1.89
1130039--1130107	35	2.0	35	86	11	97	26	26	14	33	1.94
1136047--1136219	85	2.1	82	83	7	215	28	10	10	50	1.69
1146331--1146374	22	2.0	22	86	4	63	18	25	31	25	1.97
1149193--1149620	112	3.8	112	92	2	637	30	22	15	31	1.95
1150408--1150684	80	3.3	82	86	6	357	27	10	11	50	1.70
1153922--1153960	19	2.1	19	90	9	62	64	12	2	20	1.40
1154525--1154663	36	3.9	36	94	0	233	42	17	15	24	1.88
1161606--1161737	66	2.0	66	100	0	264	28	18	22	30	1.97
1167670--1167738	21	3.3	20	82	6	84	34	30	13	21	1.91
1168315--1168453	54	2.6	54	86	4	192	28	22	17	30	1.97
1174162--1174225	23	3.0	21	68	22	60	34	26	18	20	1.96
1174216--1174264	21	2.3	21	89	0	71	34	30	16	18	1.93
1174398--1174447	21	2.4	21	86	6	66	30	22	8	40	1.82
1174846--1174991	55	2.6	56	84	2	188	30	20	18	30	1.96
1176887--1177156	138	2.0	132	88	11	406	45	7	9	37	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1177185--1177231	15	3.0	16	81	6	69	8	12	34	44	1.73
1178421--1178454	18	1.9	18	88	5	52	32	8	23	35	1.86
1179202--1179255	28	2.0	27	82	7	65	31	5	9	53	1.56
1180293--1180336	16	2.6	17	75	7	54	38	9	13	38	1.77
1190931--1191671	94	7.7	94	93	4	1259	22	18	24	34	1.96
1192512--1192548	11	3.5	11	82	14	51	0	10	0	89	0.49
1192522--1192547	9	2.9	9	100	0	52	0	7	0	92	0.39
1199687--1199729	13	3.4	13	80	6	52	79	2	2	16	0.95
1199687--1199728	19	2.3	19	84	12	52	80	2	2	14	0.90
1203439--1203517	4	19.5	4	76	12	65	70	2	3	22	1.15
1203444--1203514	26	2.8	26	75	12	58	69	2	4	23	1.20
1210481--1210521	19	2.0	19	86	13	55	17	24	31	26	1.97
1210519--1210557	17	2.3	17	100	0	78	17	46	23	12	1.83
1217766--1217804	10	3.8	10	83	6	51	17	17	23	41	1.91
1217822--1217860	19	2.1	19	95	0	69	15	41	30	12	1.85
1219266--1219622	58	6.3	58	88	6	538	32	12	19	35	1.89
1219269--1219622	111	3.2	112	88	5	529	32	12	19	35	1.89
1219266--1219622	169	2.1	167	89	5	542	32	12	19	35	1.89
1219838--1220235	68	5.8	68	84	4	501	29	16	25	28	1.96
1219838--1220183	142	2.5	142	85	5	465	28	16	25	28	1.97
1219838--1220235	210	1.9	210	85	3	559	29	16	25	28	1.96
1220312--1220634	45	7.2	45	88	1	461	35	11	23	28	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1223961--1224011	17	2.7	19	82	14	70	33	17	27	21	1.96
1224399--1224604	56	3.6	58	89	3	305	33	10	20	35	1.87
1224399--1224604	114	1.8	113	91	3	342	33	10	20	35	1.87
1230549--1230583	16	2.2	16	89	0	52	62	5	2	28	1.32
1233803--1234046	58	4.2	58	94	0	434	32	10	20	36	1.87
1234264--1234518	68	3.8	68	88	1	368	30	16	23	29	1.96
1234264--1234518	135	1.9	136	90	0	413	30	16	23	29	1.96
1234578--1234962	45	8.6	45	89	1	549	36	11	23	28	1.90
1239797--1239841	21	2.3	18	85	11	54	80	8	8	2	1.00
1240698--1240857	65	2.5	63	85	8	198	30	23	18	27	1.98
1240698--1240877	65	2.8	64	80	15	192	28	24	18	27	1.98
1242868--1242922	20	2.6	22	80	5	60	54	3	16	25	1.58
1246712--1246783	20	3.6	20	100	0	144	29	29	25	16	1.97
1248302--1248343	21	2.0	21	85	0	57	9	40	16	33	1.81
1250031--1250174	71	2.0	72	98	1	281	35	11	22	30	1.89
1252024--1252071	18	2.5	19	86	6	62	31	18	27	22	1.97
1253495--1253625	32	3.9	32	74	16	122	29	22	20	26	1.99
1253493--1253632	69	2.0	70	95	2	255	29	23	21	25	1.99
1257682--1257756	35	2.1	35	100	0	150	22	14	34	28	1.94
1259839--1259898	24	2.5	24	94	0	102	46	16	3	33	1.64
1260239--1260294	23	2.6	22	86	10	80	26	23	17	32	1.97
1266188--1266220	16	1.9	18	88	11	52	51	3	0	45	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1266918--1266962	23	2.0	23	95	0	81	31	24	13	31	1.93
1267763--1267797	11	3.2	11	91	0	52	54	22	0	22	1.45
1267997--1268247	126	2.0	127	89	9	390	37	29	1	31	1.69
1272965--1273011	22	2.1	23	88	4	69	38	25	10	25	1.88
1275405--1275463	27	2.3	25	91	8	93	20	6	32	40	1.78
1283210--1283414	27	7.4	27	65	21	95	24	21	27	25	2.00
1283122--1283421	54	5.5	55	78	6	304	26	21	25	26	2.00
1283535--1283693	81	2.0	81	89	0	246	31	20	30	17	1.95
1289079--1289147	31	2.2	31	84	0	84	50	7	5	36	1.54
1294107--1294157	24	2.2	24	96	3	95	50	13	7	27	1.69
1297615--1297704	39	2.3	39	88	7	137	51	8	8	31	1.64
1305075--1305192	59	2.0	59	96	0	218	37	17	16	28	1.92
1309166--1309196	16	1.9	16	93	0	53	48	25	12	12	1.77
1309321--1309349	8	3.8	8	90	9	51	65	10	0	24	1.23
1319926--1319982	7	8.1	7	82	0	51	21	1	31	45	1.62
1319923--1319986	21	3.0	22	84	6	80	20	1	31	46	1.60
1324663--1324692	2	14.5	2	93	6	51	50	0	3	46	1.18
1324860--1325028	79	2.1	81	86	2	234	34	13	17	34	1.89
1328817--1329015	43	4.7	43	80	4	206	26	24	16	33	1.96
1328816--1329027	86	2.5	85	82	3	255	26	24	16	32	1.96
1328816--1329050	43	5.5	42	78	4	204	25	25	16	32	1.96
1331458--1331506	25	2.1	22	82	14	55	12	4	44	38	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1331803--1331847	3	15.0	3	95	0	81	64	2	0	33	1.06
1332184--1332767	45	13.0	45	82	2	645	40	18	16	24	1.91
1332783--1332952	74	2.3	74	82	2	198	48	15	15	21	1.81
1332774--1332964	37	5.2	36	80	7	170	46	15	15	23	1.83
1333388--1333457	24	3.0	24	76	14	65	42	1	20	35	1.61
1334906--1335218	45	6.9	44	84	7	335	41	19	16	23	1.90
1335022--1335093	23	3.2	23	63	11	58	45	18	18	18	1.85
1334902--1335211	135	2.3	134	85	4	410	41	19	16	23	1.90
1335225--1335417	37	5.2	37	83	4	192	47	12	14	25	1.79
1335313--1335429	37	3.3	34	79	13	121	46	12	14	26	1.81
1335877--1335938	24	2.5	24	84	7	81	41	0	20	37	1.53
1335877--1335938	25	2.6	25	82	12	85	41	0	20	37	1.53
1340665--1340731	30	2.2	30	89	0	98	43	7	19	29	1.78
1343800--1343834	17	2.1	17	100	0	70	51	0	37	11	1.38
1356337--1356382	23	2.0	23	100	0	92	52	8	4	34	1.52
1361253--1361291	19	2.1	18	86	13	53	30	12	0	56	1.37
1363796--1363904	35	3.0	36	88	10	152	31	4	16	47	1.67
1367449--1367501	24	2.2	24	79	0	61	50	16	11	20	1.76
1367472--1367552	24	3.3	24	76	10	65	44	18	13	23	1.85
1371960--1372006	24	2.0	24	95	0	85	29	14	12	42	1.83
1379661--1379719	28	2.0	30	83	6	77	42	1	3	52	1.28
1379898--1379934	19	2.0	19	89	5	58	45	0	8	45	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1382012--1382330	81	4.0	81	91	2	482	29	20	11	38	1.88
1382012--1382331	160	2.0	160	90	1	498	29	20	11	38	1.88
1382283--1382537	68	3.8	68	86	0	341	28	22	16	33	1.95
1382283--1382537	136	1.9	135	89	0	393	28	22	16	33	1.95
1383207--1383257	19	2.7	19	93	3	86	23	25	17	33	1.96
1383282--1383333	22	2.5	21	87	6	70	28	23	15	32	1.95
1383185--1383410	95	2.4	93	83	10	257	23	23	16	36	1.94
1386715--1386866	59	2.6	59	82	1	160	44	3	23	28	1.71
1387313--1387388	31	2.5	30	77	10	82	48	10	2	38	1.52
1393755--1394363	204	3.0	204	95	0	1076	31	22	25	20	1.98

Tables:   1   2   3   4   5   6   7   8