genome.fa.s7819.2.7.7.80.10.50.1000.7.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: VEPZ01007819.1 Hibiscus syriacus cultivar Beakdansim tig00110156_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3855360

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

This is table  7  of  17  ( 2007 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)
1206854--1206893	20	1.9	21	85	10	55	37	5	32	25	1.77
1211273--1211562	145	2.0	145	100	0	580	35	22	13	28	1.92
1214173--1214204	2	16.0	2	100	0	64	50	0	0	50	1.00
1220991--1221125	69	2.0	66	90	9	211	35	11	23	28	1.90
1227274--1227336	30	2.1	29	85	2	81	33	3	6	57	1.40
1227521--1227564	22	2.0	22	86	0	61	38	0	6	54	1.27
1234616--1234655	2	20.0	2	100	0	80	50	0	0	50	1.00
1237088--1237248	50	3.2	52	64	19	122	31	14	18	36	1.90
1237080--1237276	100	2.0	102	92	2	335	32	12	15	39	1.85
1251478--1251591	58	2.0	58	87	0	165	44	19	19	16	1.87
1253219--1253295	37	2.1	37	83	9	95	46	1	3	48	1.28
1254042--1254118	32	2.4	32	85	10	95	38	0	1	59	1.06
1254064--1254098	17	2.0	18	88	5	54	37	0	2	60	1.12
1254253--1254306	17	3.2	17	72	0	54	31	0	3	64	1.11
1255370--1255668	128	2.3	128	95	0	544	21	23	20	34	1.97
1256058--1256164	34	3.1	34	87	0	151	36	2	4	56	1.35
1256672--1256807	21	6.5	21	89	6	204	20	26	34	18	1.96
1256672--1256807	42	3.2	42	94	2	229	20	26	34	18	1.96
1256811--1256879	21	3.3	21	93	0	111	20	13	40	26	1.88
1265903--1265939	18	2.1	18	94	0	65	24	10	13	51	1.73
1266768--1266839	36	2.0	36	94	0	126	29	23	22	25	1.99
1267116--1267169	20	2.7	20	97	0	99	31	24	18	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1267113--1267230	61	1.9	62	84	5	159	37	22	16	23	1.94
1267156--1267224	21	3.3	20	70	11	50	40	21	15	21	1.91
1267136--1267224	41	2.2	41	85	0	115	38	22	15	23	1.93
1267396--1267439	22	2.0	22	95	0	79	20	45	15	18	1.85
1267694--1267752	20	3.0	20	87	0	73	16	18	22	42	1.89
1269057--1269100	17	2.5	17	81	3	52	29	40	15	13	1.86
1269620--1269708	32	2.8	32	94	3	153	46	22	19	12	1.83
1269725--1269782	14	3.9	14	79	16	71	10	17	24	48	1.78
1269720--1269798	32	2.4	33	95	2	142	11	18	22	46	1.81
1269785--1269839	21	2.7	20	86	5	74	14	21	23	40	1.90
1269792--1269858	20	3.3	20	85	2	71	16	17	23	41	1.89
1269812--1269865	20	2.7	20	79	0	63	24	11	24	40	1.87
1271560--1271595	14	2.6	14	90	0	54	30	0	22	47	1.52
1271678--1271716	20	2.0	20	94	0	69	46	30	10	12	1.75
1271722--1271767	19	2.4	19	100	0	92	47	17	19	15	1.82
1271812--1271881	20	3.5	20	92	1	106	18	22	24	34	1.96
1272094--1272144	20	2.5	20	96	0	93	21	31	17	29	1.96
1272886--1272939	24	2.2	24	86	0	72	24	14	20	40	1.90
1273114--1273138	12	2.1	12	100	0	50	72	0	28	0	0.86
1275412--1275539	33	3.8	33	83	6	177	45	18	20	15	1.86
1275413--1275546	67	2.0	66	92	1	223	44	18	20	17	1.88
1275412--1275543	19	7.7	19	66	24	87	45	18	20	15	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1275548--1275600	19	2.8	19	100	0	106	11	20	22	45	1.83
1275707--1275743	14	2.6	14	91	0	65	45	24	0	29	1.53
1277094--1277263	41	4.1	42	74	8	145	21	18	35	23	1.95
1277124--1277295	83	2.1	81	95	4	310	23	16	36	22	1.94
1277148--1277292	42	3.5	42	79	3	170	24	15	36	22	1.94
1277512--1277694	94	2.0	86	88	8	267	46	19	12	21	1.83
1278092--1278119	9	3.1	9	100	0	56	32	0	57	10	1.33
1279302--1279391	33	2.5	34	77	12	92	46	18	22	12	1.82
1279302--1279446	19	8.1	19	72	16	121	46	19	22	11	1.82
1279326--1279391	33	2.0	33	87	0	96	43	21	22	12	1.85
1279334--1279446	52	2.2	52	93	0	190	44	22	23	10	1.83
1279824--1279880	22	2.6	22	71	0	60	19	19	38	22	1.93
1280038--1280090	20	2.7	20	81	0	70	30	18	26	24	1.98
1280099--1280152	20	2.7	20	97	0	99	25	18	24	31	1.97
1280141--1280191	20	2.5	20	83	0	66	17	25	19	37	1.94
1280222--1280262	21	2.0	21	85	0	55	34	31	17	17	1.93
1283825--1283871	15	3.1	15	93	0	76	53	21	25	0	1.46
1283825--1283871	5	9.4	5	92	0	67	53	21	25	0	1.46
1284218--1284274	30	1.9	30	92	0	96	19	17	42	21	1.90
1284421--1284522	50	2.0	50	100	0	204	25	1	15	56	1.50
1287516--1287566	20	2.5	20	90	6	77	47	9	19	23	1.79
1289469--1289520	2	26.0	2	100	0	104	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1291013--1291043	15	2.1	15	93	0	53	22	19	16	41	1.89
1295656--1295815	65	2.5	65	90	1	259	32	21	16	29	1.95
1304389--1304440	19	2.7	19	100	0	104	30	30	17	21	1.96
1304323--1304485	83	2.0	83	83	8	206	30	25	17	26	1.97
1306888--1306957	6	10.8	6	75	17	52	67	2	1	28	1.14
1309032--1309074	21	2.0	21	90	0	68	32	27	23	16	1.96
1309618--1310038	103	4.1	103	98	0	779	25	12	24	36	1.91
1310058--1310120	23	2.7	23	87	4	92	20	26	26	25	1.99
1315231--1315273	21	2.0	21	90	0	68	32	27	23	16	1.96
1315301--1315338	20	1.9	20	88	0	58	23	34	31	10	1.89
1315817--1316240	103	4.1	103	98	0	812	25	13	24	36	1.92
1316258--1316301	23	1.9	23	90	0	70	25	31	20	22	1.98
1320465--1320682	103	2.1	103	96	0	400	25	13	23	37	1.91
1320689--1320766	23	3.3	23	81	1	93	25	17	23	33	1.96
1324254--1324288	18	1.9	18	88	0	52	5	28	0	65	1.15
1334270--1334361	37	2.5	37	85	5	134	45	17	9	27	1.79
1342765--1342851	32	2.8	32	85	5	115	33	18	14	33	1.92
1342779--1342869	32	2.8	32	86	3	112	34	19	15	30	1.93
1343590--1343666	20	3.7	20	79	14	75	27	25	18	28	1.98
1343636--1343680	19	2.4	19	100	0	90	24	31	17	26	1.97
1351199--1351345	60	2.4	61	80	6	140	41	6	17	34	1.75
1352996--1353135	70	2.0	70	100	0	280	28	25	27	18	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1354723--1354751	7	4.3	7	91	8	51	27	0	0	72	0.85
1354723--1354751	13	2.1	14	93	6	51	27	0	0	72	0.85
1354924--1354996	38	1.9	38	100	0	146	47	21	2	27	1.64
1355873--1355916	5	9.0	5	80	14	56	22	0	0	77	0.77
1355884--1355908	13	1.9	13	100	0	50	20	0	0	80	0.72
1355909--1355962	22	2.6	20	77	11	63	27	9	7	55	1.58
1356165--1356262	30	3.3	29	81	7	99	18	14	10	57	1.65
1362719--1362762	23	2.0	23	86	13	65	56	0	4	38	1.20
1365005--1365111	31	3.4	32	75	8	112	32	15	18	32	1.93
1365989--1366043	20	2.8	20	85	0	83	29	36	12	21	1.91
1369560--1369617	24	2.4	23	77	11	62	48	0	50	1	1.11
1372719--1372823	54	1.9	54	88	0	156	28	15	17	39	1.90
1372725--1372844	54	2.2	54	85	2	152	30	15	16	37	1.90
1376083--1376127	18	2.4	18	77	3	54	51	6	26	15	1.68
1378544--1378839	147	2.0	149	97	1	569	33	30	15	20	1.94
1388212--1388257	21	2.2	21	84	0	56	26	4	17	52	1.63
1389487--1389529	18	2.4	18	100	0	86	0	13	48	37	1.43
1393067--1393100	14	2.4	14	90	0	50	47	17	0	35	1.48
1394335--1394395	23	2.7	23	92	0	104	26	27	27	18	1.98
1394720--1394781	25	2.4	25	81	2	70	41	8	11	38	1.70
1395020--1395074	20	2.8	20	86	2	76	27	30	16	25	1.96
1401238--1401298	23	2.7	23	89	5	97	27	27	26	18	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1401521--1401580	31	2.0	30	87	9	86	36	25	1	36	1.66
1403932--1404006	11	6.6	11	74	17	73	29	22	22	25	1.99
1403941--1404006	23	2.9	23	88	0	105	31	21	22	24	1.98
1404467--1404491	12	2.1	12	100	0	50	52	0	0	48	1.00
1408513--1408561	20	2.4	21	80	19	59	24	10	10	55	1.64
1413489--1413519	15	2.1	15	93	0	53	45	0	0	54	0.99
1413670--1413713	20	2.3	19	84	7	54	22	20	9	47	1.78
1458459--1458498	20	2.0	20	95	0	71	45	12	5	37	1.64
1458455--1458583	53	2.5	52	96	3	242	48	12	6	32	1.65
1458512--1458551	20	2.0	21	90	5	64	45	15	5	35	1.68

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