genome.fa.s8495.2.7.7.80.10.50.1000.6.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: VEPZ01008495.1 Hibiscus syriacus cultivar Beakdansim tig00111338_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5120959

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  6  of  21  ( 2505 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)
1187507--1188131	257	2.4	257	87	2	878	36	16	14	32	1.89
1187592--1188727	543	2.1	543	89	2	1728	34	17	15	32	1.91
1188136--1188673	256	2.1	256	88	2	778	34	17	15	33	1.91
1201523--1201700	94	1.9	95	85	3	252	37	12	21	28	1.90
1202130--1202295	81	2.1	80	86	1	224	39	12	18	30	1.87
1202820--1202847	11	2.5	11	100	0	56	17	17	17	46	1.85
1208313--1208483	93	1.8	95	84	5	240	39	13	21	25	1.90
1208893--1209382	81	6.1	81	86	1	696	36	10	20	32	1.87
1214081--1214135	25	2.2	25	81	12	67	72	0	21	5	1.04
1214082--1214135	26	2.1	26	86	6	74	74	0	20	5	1.02
1215284--1215614	114	2.9	113	80	6	346	40	15	17	26	1.89
1218816--1218877	31	2.0	31	87	0	88	37	8	8	46	1.63
1219233--1219273	21	2.0	21	90	0	64	43	7	12	36	1.70
1219267--1219305	19	2.0	20	95	5	71	46	10	0	43	1.37
1219264--1219312	26	1.9	26	87	4	73	48	8	0	42	1.32
1220841--1221574	138	5.3	138	83	3	879	29	14	14	41	1.85
1222435--1222472	19	2.0	19	89	0	58	47	15	0	36	1.46
1222477--1222537	32	1.9	32	83	12	81	62	9	0	27	1.27
1222375--1222557	76	2.5	76	85	8	238	55	13	0	31	1.42
1222375--1222581	76	2.8	74	79	11	228	56	11	1	30	1.44
1224249--1224290	5	8.8	5	89	5	61	61	0	16	21	1.34
1227902--1228092	70	2.6	74	84	11	245	54	12	0	31	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1227902--1228116	74	2.9	73	80	13	230	55	11	0	32	1.41
1228328--1229246	138	6.7	138	82	3	1071	30	14	15	39	1.87
1228325--1229246	413	2.2	412	84	2	1172	30	14	15	39	1.87
1228325--1229246	275	3.3	273	83	4	1126	30	14	15	39	1.87
1229621--1229646	13	2.0	13	100	0	52	38	23	0	38	1.55
1236553--1236601	23	2.1	23	100	0	98	16	18	26	38	1.91
1240085--1240139	27	2.0	27	96	0	101	30	10	12	45	1.77
1252306--1252384	30	2.6	31	82	11	94	43	7	16	32	1.76
1253282--1253352	30	2.4	30	86	6	92	38	5	19	36	1.76
1254190--1254310	40	3.0	40	95	1	217	23	15	26	34	1.95
1254421--1254726	45	6.8	45	90	1	463	41	6	20	32	1.77
1257421--1257481	25	2.4	25	83	8	70	75	4	19	0	0.98
1257433--1257480	20	2.5	20	86	6	64	77	2	20	0	0.88
1257433--1257514	26	3.0	28	79	11	75	73	1	20	4	1.09
1259325--1259383	30	2.0	30	86	6	84	38	8	16	35	1.80
1260350--1260406	30	1.9	29	85	3	78	35	8	17	38	1.81
1261417--1261674	45	5.8	45	90	3	389	39	6	21	32	1.78
1261417--1261674	89	2.9	88	89	6	394	39	6	21	32	1.78
1261417--1261674	134	1.9	134	89	3	403	39	6	21	32	1.78
1265702--1265739	18	2.1	18	90	0	58	55	2	5	36	1.37
1266605--1266661	26	2.2	26	83	0	69	29	15	22	31	1.95
1273621--1273772	41	3.7	41	80	8	150	45	10	19	25	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1274927--1274966	20	2.1	19	85	4	53	40	5	22	32	1.76
1275290--1275378	39	2.3	39	84	0	115	39	15	1	43	1.54
1275453--1275533	35	2.3	37	79	12	89	33	0	7	59	1.25
1277700--1277744	19	2.3	19	80	3	54	44	11	8	35	1.71
1280357--1280429	36	2.0	36	94	0	128	53	5	13	27	1.62
1282726--1282815	46	2.0	46	82	4	110	32	5	22	40	1.77
1283543--1283585	20	2.2	19	91	4	68	18	20	11	48	1.79
1288401--1288449	21	2.3	22	92	7	91	46	4	26	22	1.69
1289414--1289526	39	2.9	39	85	6	149	41	28	4	25	1.74
1290401--1290452	21	2.5	21	81	3	61	38	19	25	17	1.93
1290441--1290494	20	2.7	20	97	0	99	31	24	18	25	1.97
1291025--1291072	19	2.5	19	77	12	53	45	27	16	10	1.80
1291068--1291146	19	4.1	19	90	3	122	12	22	17	46	1.82
1291068--1291146	39	2.1	38	90	2	122	12	22	17	46	1.82
1293281--1293431	21	7.2	21	62	10	58	22	37	19	21	1.95
1293229--1293432	42	4.9	42	79	2	196	22	36	18	23	1.95
1293226--1293401	84	2.1	84	98	0	343	21	37	17	23	1.94
1293226--1293432	84	2.5	84	91	1	290	21	36	18	23	1.95
1293371--1293434	21	3.0	21	73	6	67	21	37	20	20	1.94
1294788--1294823	14	2.6	14	95	0	63	30	0	25	44	1.54
1294930--1295009	19	4.5	19	75	15	89	46	18	22	12	1.83
1294967--1295023	14	3.7	14	70	20	51	43	21	24	10	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1294948--1295038	33	2.8	33	89	0	137	45	18	21	14	1.85
1295034--1295184	19	8.7	19	63	21	71	15	21	20	42	1.89
1295038--1295160	33	3.8	32	87	8	185	14	22	19	43	1.88
1295031--1295160	66	2.0	66	96	0	242	16	22	19	42	1.89
1297456--1297492	12	3.1	12	100	0	74	0	27	0	72	0.84
1297667--1297720	24	2.2	24	90	0	81	40	20	16	22	1.91
1298541--1298632	20	4.6	20	73	2	76	39	21	18	20	1.93
1298846--1298913	20	3.4	20	72	8	75	39	23	20	16	1.91
1298945--1298998	14	3.5	14	75	22	54	12	18	20	48	1.81
1298942--1299006	33	2.0	33	87	0	94	15	20	20	44	1.86
1299125--1299161	14	2.6	14	86	0	56	48	21	0	29	1.50
1301000--1301078	20	4.0	20	79	0	77	37	24	17	20	1.93
1301081--1301171	14	5.9	14	74	20	83	48	23	17	10	1.79
1301065--1301176	33	3.4	33	97	1	208	47	22	18	11	1.81
1301710--1301754	18	2.5	18	88	0	72	13	15	44	26	1.83
1303074--1303132	20	3.0	20	87	0	73	42	22	18	16	1.89
1303624--1303675	20	2.6	20	93	0	86	25	21	28	25	1.99
1303686--1303737	20	2.5	20	81	3	59	17	25	19	38	1.93
1305448--1305900	182	2.5	182	94	0	762	26	16	13	43	1.86
1305810--1305861	20	2.6	20	78	0	68	13	15	13	57	1.65
1305774--1306234	112	4.1	112	92	0	773	24	16	14	44	1.84
1305774--1306224	223	2.0	223	93	0	769	24	15	14	45	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1307465--1307521	30	1.9	30	96	0	105	47	7	17	28	1.73
1308460--1308541	43	1.9	43	87	0	119	31	10	23	34	1.89
1308510--1308813	43	7.1	43	71	11	126	25	17	24	32	1.97
1308524--1308757	128	1.8	128	79	9	271	25	17	24	32	1.97
1308788--1308903	42	2.8	42	83	10	139	26	19	21	31	1.97
1310017--1310079	13	4.5	13	74	18	63	15	46	22	15	1.84
1309995--1310085	18	5.2	18	78	16	93	16	47	19	16	1.83
1309999--1310079	31	2.6	31	90	0	135	16	46	20	16	1.83
1310053--1310107	8	7.5	8	80	19	75	14	38	25	21	1.92
1310069--1310108	7	5.4	7	91	8	62	12	35	27	25	1.92
1310069--1310107	15	2.6	15	100	0	78	12	35	25	25	1.92
1312596--1312695	24	4.2	24	71	5	85	24	13	16	47	1.81
1314860--1314920	13	4.3	13	73	18	59	16	45	21	16	1.85
1314838--1314914	18	4.6	18	78	15	92	16	49	19	14	1.80
1314842--1314920	31	2.5	31	89	0	131	16	46	20	16	1.84
1314912--1314950	7	5.4	7	93	6	69	12	33	28	25	1.93
1314912--1314949	15	2.6	15	95	4	69	13	34	26	26	1.93
1314909--1314950	22	1.9	22	100	0	84	14	33	28	23	1.94
1317438--1317537	24	4.2	24	71	5	85	24	13	16	47	1.81
1319678--1319720	17	2.4	18	96	3	79	18	51	16	13	1.77
1319682--1319760	30	2.6	30	86	4	115	16	45	21	16	1.85
1319678--1319750	17	4.5	17	77	18	66	17	47	19	15	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1319700--1319760	13	4.5	13	75	16	61	16	44	22	16	1.86
1319750--1319786	7	5.1	7	96	3	65	13	32	27	27	1.94
1322266--1322364	24	4.2	24	70	7	76	24	12	16	47	1.80
1323137--1323196	21	2.8	22	75	7	61	3	36	16	43	1.65
1331779--1331860	40	2.1	39	81	6	94	39	15	13	31	1.87
1331468--1332000	160	3.3	159	76	10	494	32	17	18	30	1.95
1331875--1331956	41	2.0	41	88	6	123	28	15	25	30	1.96
1337680--1337769	2	47.0	2	91	8	152	50	0	0	50	1.00
1337945--1337999	24	2.3	23	84	12	67	21	3	1	72	1.09
1352650--1353287	135	4.7	135	85	2	800	35	15	19	28	1.93

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21