genome.fa.s9576.2.7.7.80.10.50.1000.8.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: VEPZ01009576.1 Hibiscus syriacus cultivar Beakdansim tig00116944_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1684752

Tables:   1   2   3   4   5   6   7   8   9   10   

This is table  8  of  10  ( 1108 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)
1253034--1253097	19	3.5	19	75	10	53	79	4	7	7	1.04
1266920--1266960	16	2.8	15	82	13	50	21	9	2	65	1.34
1266942--1267031	42	2.1	42	89	4	137	25	12	4	57	1.53
1268543--1268607	17	3.5	17	70	24	51	52	1	0	46	1.10
1268673--1268708	17	2.1	18	89	5	56	41	8	5	44	1.58
1268916--1268947	15	2.0	17	88	11	50	56	0	0	43	0.99
1270275--1270362	3	28.7	3	86	4	122	62	1	0	36	1.03
1270491--1271286	76	10.5	76	98	0	1502	34	21	22	21	1.97
1271948--1272002	22	2.5	22	90	0	92	40	16	10	32	1.83
1272367--1272478	54	2.1	54	87	0	161	21	24	16	38	1.93
1273666--1273889	114	2.0	114	90	1	360	30	19	15	34	1.93
1281278--1281342	17	3.5	17	70	24	51	52	1	0	46	1.10
1281408--1281443	17	2.1	18	89	5	56	41	8	5	44	1.58
1282283--1282311	13	2.2	13	100	0	58	6	62	31	0	1.22
1283025--1283133	3	35.7	3	87	3	128	59	0	0	39	1.04
1286185--1286245	22	2.7	23	78	19	65	42	1	4	50	1.33
1286698--1286737	10	4.0	10	84	12	55	32	27	0	40	1.57
1286864--1287196	111	3.0	111	97	0	621	35	7	12	44	1.70
1289050--1289085	9	4.0	9	85	0	54	30	19	36	13	1.91
1292909--1293018	50	2.2	50	80	0	130	20	28	33	17	1.95
1294142--1294197	24	2.3	24	100	0	112	28	17	16	37	1.91
1294956--1295012	26	2.2	26	100	0	114	45	14	12	28	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1298155--1298213	31	1.9	30	86	10	84	57	0	1	40	1.09
1301273--1301304	6	5.3	6	96	0	55	31	0	68	0	0.90
1302589--1303129	208	2.5	214	81	9	575	26	16	17	39	1.91
1310228--1310283	18	2.8	19	70	24	53	53	10	3	32	1.53
1310809--1311128	156	2.1	156	100	0	640	32	16	12	38	1.86
1311819--1311866	24	2.0	24	100	0	96	8	8	25	58	1.55
1313061--1313093	16	2.1	16	94	0	57	6	9	24	60	1.49
1319465--1319552	31	2.9	31	84	1	106	25	17	20	37	1.93
1319557--1319614	22	2.6	22	80	0	71	25	20	25	27	1.99
1321011--1321067	24	2.4	24	79	2	62	24	12	12	50	1.74
1321030--1321095	22	2.9	23	75	4	62	24	10	18	46	1.80
1321352--1321438	20	4.3	20	85	5	122	44	26	12	16	1.83
1321426--1321476	19	2.7	19	84	0	75	43	21	3	31	1.71
1321352--1321484	20	6.8	20	74	14	89	43	23	10	22	1.84
1321652--1321689	16	2.5	15	84	12	51	28	5	0	65	1.14
1324967--1325016	20	2.5	20	86	0	73	46	22	18	14	1.84
1325050--1325113	20	3.1	20	76	13	67	17	20	18	43	1.88
1325174--1325223	25	2.0	25	88	7	75	28	8	18	46	1.77
1325609--1325645	18	2.1	18	89	0	56	32	5	10	51	1.60
1325601--1325653	24	2.2	24	86	0	70	35	3	13	47	1.61
1326844--1326876	13	2.4	14	95	5	59	51	15	0	33	1.43
1326779--1326933	78	2.0	78	92	5	260	50	16	1	31	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1328306--1328380	21	3.6	21	75	7	71	22	21	32	24	1.98
1330997--1331049	22	2.4	22	87	0	70	18	15	41	24	1.89
1331153--1331266	20	5.7	20	82	4	140	22	14	21	41	1.90
1331153--1331278	40	3.2	40	89	0	189	22	15	21	41	1.90
1333712--1334065	85	4.2	83	83	6	396	24	18	22	33	1.97
1334251--1334499	112	2.2	111	87	4	365	22	18	26	32	1.97
1334621--1334731	43	2.6	43	86	0	159	21	18	31	27	1.97
1334818--1334927	43	2.6	43	88	0	148	20	18	32	28	1.96
1334610--1334969	197	1.8	197	93	0	621	21	20	27	29	1.98
1337174--1337217	20	2.2	20	84	8	54	40	2	6	50	1.42
1340372--1340419	7	7.0	7	80	4	62	18	0	35	45	1.50
1340372--1340419	21	2.3	20	89	3	69	18	0	35	45	1.50
1340962--1341008	24	2.0	24	86	0	67	46	2	2	48	1.25
1340979--1341021	21	2.0	20	83	16	52	39	6	0	53	1.28
1341107--1341138	16	2.0	16	100	0	64	43	18	0	37	1.51
1341096--1341155	26	2.3	25	83	11	77	46	16	0	36	1.47
1341022--1341226	98	2.1	93	79	9	216	44	11	3	40	1.57
1341236--1341281	23	2.0	23	83	8	58	45	8	6	39	1.61
1341282--1341344	26	2.4	26	97	0	117	39	3	14	42	1.61
1341662--1341691	10	2.8	11	90	10	53	40	0	0	60	0.97
1343831--1343882	27	1.9	27	96	0	95	21	0	36	42	1.53
1352025--1352344	159	2.0	159	100	0	640	27	13	33	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1354696--1354735	21	1.9	21	85	10	55	55	0	7	37	1.29
1358832--1358892	21	2.9	21	77	13	63	31	19	22	26	1.98
1358882--1358954	20	3.6	20	79	17	96	23	20	19	36	1.95
1358880--1358975	41	2.3	42	92	3	160	23	20	19	35	1.96
1358860--1358981	62	2.0	62	81	12	144	25	21	21	31	1.98
1358880--1358978	21	4.8	21	77	18	84	24	20	20	35	1.96
1358901--1358995	21	4.6	21	81	11	97	22	21	24	32	1.98
1359137--1359187	23	2.3	23	80	10	61	64	3	0	31	1.11
1361258--1361392	51	2.7	50	88	2	189	17	34	31	17	1.93
1365287--1365352	23	2.8	23	76	13	62	72	7	0	19	1.08
1367455--1367504	9	5.9	9	73	21	54	64	2	0	34	1.05
1367457--1367504	16	2.9	16	85	14	71	62	2	0	35	1.07
1367451--1367506	25	2.2	26	84	9	71	67	1	0	30	1.01
1372638--1372964	160	2.0	160	98	0	627	27	12	12	47	1.77
1374460--1374565	45	2.3	47	86	6	144	30	11	19	38	1.87
1384196--1384308	10	11.7	9	73	18	61	76	0	15	7	0.99
1384229--1384260	11	2.8	12	90	9	57	75	0	9	15	1.05
1384231--1384298	27	2.7	25	80	10	75	77	0	13	8	0.98
1384217--1384298	24	3.4	24	79	16	82	76	0	14	8	1.00
1385585--1385659	37	2.1	36	87	7	107	36	18	21	24	1.95
1385670--1385976	55	5.7	55	80	6	317	26	19	26	28	1.99
1391897--1391927	15	2.1	15	93	0	53	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1392335--1392439	51	2.1	50	89	5	158	36	8	7	47	1.63
1396338--1396362	3	8.3	3	100	0	50	32	0	0	68	0.90
1398295--1398492	100	2.0	97	95	3	353	28	19	26	25	1.99
1402880--1402940	30	2.1	30	84	9	81	42	4	19	32	1.73
1402880--1402940	29	2.1	29	84	9	79	42	4	19	32	1.73
1405462--1405495	18	1.9	17	88	5	50	29	0	5	64	1.17
1406078--1406138	29	2.1	30	81	9	72	32	21	4	40	1.74
1407196--1407229	16	2.1	17	88	5	52	44	20	0	35	1.52
1410820--1410863	21	2.1	21	100	0	88	47	4	4	43	1.44
1412863--1412917	2	27.5	2	100	0	110	50	0	0	49	1.00
1419397--1419470	28	2.6	28	84	2	94	55	24	0	20	1.43
1419386--1419460	28	2.6	30	80	6	91	56	24	0	20	1.43
1420855--1420880	2	13.0	2	100	0	52	50	0	0	50	1.00
1421068--1421109	22	1.9	22	85	9	59	42	2	2	52	1.27
1422278--1422582	33	9.2	33	82	5	355	22	9	25	41	1.84
1422278--1422582	99	3.1	98	85	3	394	22	9	25	41	1.84
1422736--1422806	33	2.2	33	92	5	117	30	21	21	26	1.98
1422684--1422880	84	2.3	84	86	3	272	26	20	23	29	1.99
1422815--1422880	33	2.0	33	87	0	96	25	16	24	33	1.96
1422684--1422902	84	2.6	84	82	4	237	25	20	24	29	1.99
1426304--1426413	51	2.2	50	85	8	150	22	10	24	41	1.86
1426337--1426758	18	25.1	18	66	16	82	24	13	21	40	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1426356--1426714	33	10.8	33	81	3	353	24	12	21	40	1.89
1426323--1426758	51	8.7	51	70	15	217	24	13	21	40	1.90
1426509--1426627	15	7.3	15	69	15	76	26	10	20	43	1.83
1426788--1426900	51	2.2	51	85	3	147	26	22	23	28	1.99
1427548--1427588	22	1.9	21	85	5	55	9	7	7	75	1.18
1427794--1427865	35	2.1	35	94	2	128	22	11	2	63	1.39
1429658--1429949	33	8.9	33	85	5	367	22	9	24	44	1.82
1429678--1430018	66	5.1	66	83	4	364	23	11	22	42	1.85
1430138--1430214	33	2.3	33	82	8	86	25	19	22	32	1.97
1430093--1430195	51	2.0	51	83	3	127	26	20	23	30	1.99

Tables:   1   2   3   4   5   6   7   8   9   10