genome.fa.s2890.2.7.7.80.10.50.1000.6.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: VEPZ01002890.1 Hibiscus syriacus cultivar Beakdansim tig00005974_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5046466

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  ( 2516 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)
1267486--1267956	109	4.4	109	86	4	580	33	25	19	21	1.97
1267486--1268114	109	5.9	104	82	9	467	33	24	19	22	1.97
1268575--1268675	37	2.8	36	84	6	123	38	14	15	30	1.88
1280989--1281019	5	6.2	5	100	0	62	0	19	0	80	0.71
1281009--1281072	28	2.3	29	83	8	87	10	15	12	60	1.58
1281835--1282015	91	2.0	91	88	0	272	29	21	27	22	1.99
1285409--1285456	24	2.0	23	92	4	78	54	16	18	10	1.70
1285409--1285448	12	3.3	12	100	0	80	57	15	17	10	1.64
1291968--1292015	13	3.7	13	77	0	60	33	20	18	27	1.96
1295905--1295978	36	2.1	36	87	5	105	32	16	13	37	1.87
1298820--1298931	44	2.4	47	83	7	140	39	8	20	31	1.83
1298820--1298939	49	2.6	44	80	11	141	39	8	21	30	1.83
1302550--1302587	20	1.9	20	88	0	58	36	34	10	18	1.85
1302543--1302593	20	2.5	19	81	12	57	37	31	11	19	1.88
1307212--1307243	12	2.6	13	90	9	50	75	0	25	0	0.81
1313769--1313799	4	7.8	4	100	0	62	77	0	0	22	0.77
1314551--1314614	24	2.7	23	77	17	60	64	1	1	32	1.13
1316817--1316923	48	2.2	49	86	6	148	40	20	14	25	1.90
1316818--1316927	24	4.6	24	84	8	134	40	20	12	26	1.89
1322237--1322368	60	2.2	61	80	9	137	50	12	2	34	1.53
1325629--1325675	3	16.3	3	82	8	62	31	0	4	63	1.13
1325629--1325678	20	2.5	20	90	0	73	32	0	4	64	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1325629--1325675	23	2.0	23	95	0	85	31	0	4	63	1.13
1327867--1327943	23	3.2	23	80	10	75	72	1	15	10	1.17
1330097--1330268	57	3.0	57	87	1	247	33	9	15	41	1.79
1330412--1330637	56	4.0	55	78	8	211	33	9	14	42	1.78
1330708--1330814	42	2.6	42	73	4	101	27	25	19	28	1.99
1331525--1331613	31	2.9	31	94	0	160	46	7	17	28	1.76
1331525--1331607	17	5.2	17	69	16	79	46	7	19	26	1.75
1331409--1331731	178	1.8	177	86	2	468	41	13	20	24	1.89
1331589--1331924	116	2.9	115	83	0	420	40	16	19	23	1.90
1331902--1331962	32	1.9	32	89	0	95	39	18	18	24	1.92
1332297--1332336	3	14.0	3	84	10	57	32	0	2	65	1.06
1332298--1332336	17	2.3	17	95	0	69	33	0	2	64	1.08
1332349--1332390	21	2.0	22	85	4	59	73	11	9	4	1.22
1332356--1332403	22	2.2	21	82	10	53	77	8	8	6	1.14
1335391--1335515	55	2.2	56	92	1	216	32	23	19	25	1.98
1335511--1335597	20	4.2	20	85	10	113	25	33	17	24	1.96
1341314--1341395	21	3.8	21	81	10	94	31	21	18	28	1.97
1341314--1341419	44	2.4	45	81	9	137	31	22	17	28	1.97
1341383--1341459	19	3.8	19	86	8	100	23	29	16	29	1.96
1344054--1344247	77	2.5	77	93	3	322	28	25	19	25	1.99
1344207--1344264	22	2.8	20	84	12	73	25	29	18	25	1.98
1345284--1345327	22	2.0	22	86	8	63	13	20	31	34	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1345397--1345480	3	28.7	3	71	21	63	63	1	1	34	1.10
1345397--1345479	15	5.7	14	77	16	80	62	1	1	34	1.11
1345653--1345775	42	3.0	42	77	7	115	33	24	21	20	1.97
1346581--1346630	22	2.3	22	100	0	100	36	14	14	36	1.86
1347385--1347435	26	2.0	26	92	3	86	19	37	17	25	1.94
1353011--1353040	12	2.6	12	94	5	53	53	0	0	46	1.00
1354172--1354214	22	2.0	22	90	9	70	9	18	34	37	1.83
1354288--1354343	3	19.3	3	85	14	82	64	0	0	35	0.94
1354288--1354343	29	1.9	29	92	7	96	64	0	0	35	0.94
1358144--1358205	31	2.0	30	84	9	81	41	8	14	35	1.75
1359317--1359367	13	4.0	13	71	5	50	43	1	11	43	1.52
1366911--1367208	85	3.5	84	91	2	447	31	17	20	29	1.96
1367187--1367218	13	2.5	13	94	0	55	28	25	21	25	1.99
1369737--1369782	23	2.0	23	91	0	74	54	0	2	43	1.12
1370000--1370057	20	2.9	20	100	0	116	24	29	10	36	1.88
1370294--1370342	13	3.8	12	79	15	53	34	0	2	63	1.06
1370285--1370341	23	2.4	23	83	11	71	35	0	1	63	1.05
1372219--1372283	25	2.6	25	97	0	121	43	4	13	38	1.65
1373551--1373599	22	2.2	22	92	0	80	30	14	20	34	1.92
1375089--1375115	2	13.5	2	100	0	54	51	48	0	0	1.00
1379420--1379471	20	2.6	21	78	9	63	28	13	28	28	1.94
1386693--1386741	24	2.0	25	88	11	75	24	20	24	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1387741--1387846	15	7.7	14	72	14	69	50	1	2	45	1.27
1387741--1387855	41	2.8	39	80	7	131	50	1	2	45	1.25
1387756--1387804	25	2.0	25	84	8	64	57	2	0	40	1.10
1387743--1387868	41	3.0	41	77	10	107	50	1	3	45	1.27
1393223--1393269	13	3.7	12	81	18	51	4	12	2	80	0.94
1393222--1393269	11	4.6	10	75	10	51	4	14	2	79	0.98
1400755--1400810	23	2.7	20	77	22	69	28	17	17	35	1.93
1400733--1400811	21	3.7	21	75	18	74	27	21	16	34	1.95
1402234--1402280	18	2.7	17	90	3	67	31	10	29	27	1.90
1402828--1402917	38	2.4	38	90	3	137	40	35	11	13	1.80
1408441--1408737	46	6.5	46	87	1	389	22	22	10	44	1.84
1409179--1409232	22	2.6	21	82	8	65	25	22	14	37	1.93
1412708--1412795	19	5.0	18	69	23	71	23	7	11	56	1.60
1412686--1412818	50	2.7	50	98	0	257	25	8	12	53	1.66
1414261--1414304	20	2.2	20	91	0	70	9	13	2	75	1.14
1414267--1414308	20	2.1	20	100	0	84	11	9	4	73	1.22
1416702--1416803	31	3.4	28	72	16	78	12	26	29	31	1.93
1429471--1429496	2	13.0	2	100	0	52	50	0	0	50	1.00
1432677--1432712	2	18.0	2	100	0	72	0	50	0	50	1.00
1440644--1440803	82	2.0	77	85	8	216	45	9	13	31	1.75
1445791--1445846	29	1.9	29	89	7	87	33	14	8	42	1.77
1449886--1450054	90	1.9	90	87	0	248	28	13	23	34	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1459421--1459580	82	2.0	77	85	8	216	45	9	13	31	1.75
1464612--1464667	29	1.9	29	89	7	87	33	14	8	42	1.77
1468749--1468917	90	1.9	90	87	0	248	28	13	23	34	1.93
1477809--1477984	39	4.5	37	83	7	172	36	23	16	23	1.94
1477809--1477954	78	1.9	78	83	8	190	36	23	17	22	1.95
1479221--1479356	70	1.9	70	93	0	236	32	18	10	38	1.84
1489886--1489930	23	2.0	23	86	0	63	24	22	24	28	1.99
1489896--1489940	23	2.0	23	86	0	63	22	24	26	26	2.00
1490046--1490153	2	54.0	2	98	0	207	49	0	0	50	1.07
1490043--1490178	14	9.9	13	92	4	51	46	0	5	48	1.24
1493646--1493702	24	2.4	24	96	0	105	26	17	28	28	1.98
1494389--1494441	22	2.4	21	75	9	52	49	3	11	35	1.57
1495083--1495149	23	2.9	23	89	8	109	22	28	25	23	1.99
1500235--1500317	23	3.6	23	90	0	130	20	28	27	22	1.99
1500433--1500470	2	19.0	2	94	0	67	47	0	0	52	1.00
1503243--1503276	12	2.8	12	95	0	59	23	20	23	32	1.98
1504581--1504622	21	2.0	21	85	0	57	64	2	11	21	1.38
1507721--1507745	2	12.5	2	100	0	50	52	0	0	48	1.00
1508008--1508248	123	2.0	123	83	8	305	36	19	15	28	1.92
1508131--1508797	134	5.0	133	79	4	635	30	17	19	31	1.96
1508131--1508797	271	2.5	268	80	3	700	30	17	19	31	1.96
1510115--1510158	7	6.7	7	82	12	58	15	6	0	77	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1510074--1510159	26	3.3	26	83	12	106	9	10	1	79	1.00
1511486--1511940	225	2.0	225	99	0	901	36	14	7	41	1.74
1511941--1512099	47	3.4	47	90	0	246	22	22	10	44	1.83
1511966--1512113	27	6.0	27	70	20	135	22	20	10	45	1.82
1511987--1512025	20	1.9	21	84	5	53	17	23	12	46	1.83
1512529--1512724	95	2.1	95	87	1	277	27	26	12	33	1.93
1516185--1516243	21	2.8	21	97	0	109	20	20	33	25	1.97
1516628--1516824	89	2.2	89	82	8	260	30	23	7	38	1.82
1516625--1516801	44	4.0	45	84	4	225	29	24	7	38	1.82
1530393--1530676	140	2.0	140	88	1	426	40	9	19	30	1.82

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