genome.fa.s8798.2.7.7.80.10.50.1000.7.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: VEPZ01008798.1 Hibiscus syriacus cultivar Beakdansim tig00111947_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1825372

Tables:   1   2   3   4   5   6   7   8   9   

This is table  7  of  9  ( 1068 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)
1268753--1268914	64	2.5	64	81	2	191	24	23	18	33	1.97
1273417--1273473	20	2.7	20	86	10	69	26	22	19	31	1.98
1276690--1276932	37	6.8	36	77	11	189	25	19	13	40	1.89
1276736--1276791	29	1.9	29	85	7	78	33	14	10	41	1.80
1276773--1276931	37	4.4	36	84	5	203	23	20	15	41	1.89
1276773--1276931	73	2.2	73	89	0	237	23	20	15	41	1.89
1277290--1277319	2	15.0	2	100	0	60	50	0	0	50	1.00
1277327--1277378	3	17.0	3	78	11	52	38	1	0	59	1.08
1277327--1277379	23	2.3	24	78	18	67	37	1	0	60	1.08
1277325--1277361	14	2.7	13	91	8	56	37	0	0	62	0.96
1278716--1278771	10	5.3	11	79	14	55	33	3	0	62	1.12
1281228--1281287	30	2.0	30	93	0	102	33	10	20	36	1.86
1283079--1283205	39	3.3	39	88	6	186	29	11	10	48	1.71
1283078--1283196	41	3.0	39	89	4	184	31	10	10	47	1.73
1289721--1289768	18	2.7	18	90	3	80	0	43	8	47	1.33
1294719--1294752	14	2.4	14	100	0	68	11	29	32	26	1.92
1294915--1294962	18	2.7	18	90	3	80	0	43	8	47	1.33
1307252--1307293	16	2.6	16	96	0	75	50	0	23	26	1.50
1316437--1316498	3	20.3	3	83	9	81	64	1	0	33	1.03
1316699--1317159	55	8.6	55	81	8	416	30	23	14	32	1.94
1329794--1329819	4	6.5	4	100	0	52	76	0	0	23	0.78
1331344--1331390	3	15.3	3	78	12	51	63	2	0	34	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1336031--1336072	16	2.7	16	85	10	52	66	4	2	26	1.23
1336026--1336122	39	2.5	39	81	8	108	67	3	5	24	1.26
1336026--1336122	41	2.4	41	83	6	110	67	3	5	24	1.26
1341315--1341349	18	1.9	18	94	0	61	11	14	57	17	1.66
1341315--1341350	9	4.0	9	85	0	54	11	16	55	16	1.68
1344679--1344733	3	18.3	3	88	0	56	45	0	0	54	0.99
1345250--1345286	11	3.5	11	85	14	51	75	5	18	0	0.99
1345254--1345295	15	2.8	15	89	7	59	76	2	21	0	0.90
1345251--1345295	20	2.2	20	88	7	65	75	2	22	0	0.91
1346837--1346861	7	3.6	7	100	0	50	68	0	0	32	0.90
1351351--1351379	14	2.0	15	93	6	51	68	0	0	31	0.89
1352721--1352746	10	2.6	10	100	0	52	19	53	19	7	1.68
1361227--1361507	83	3.3	84	88	6	415	28	13	23	34	1.92
1361411--1361714	114	2.7	115	97	1	576	31	13	22	32	1.93
1362433--1363155	112	6.5	111	92	3	1157	37	14	19	28	1.90
1363491--1363548	3	19.3	3	92	0	98	37	0	0	62	0.96
1364063--1364099	11	3.5	11	85	14	51	75	5	18	0	0.99
1364067--1364108	15	2.8	15	89	7	59	76	2	21	0	0.90
1364064--1364108	20	2.2	20	88	7	65	75	2	22	0	0.91
1367225--1369855	4	666.8	4	97	2	4668	48	0	26	25	1.51
1372995--1373074	2	40.0	2	100	0	160	50	0	0	50	1.00
1374638--1374672	17	2.0	17	88	5	52	14	20	14	51	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1375320--1375877	55	10.3	55	87	4	540	31	23	15	29	1.96
1375376--1375859	161	3.0	161	87	3	627	30	23	16	29	1.96
1375312--1375877	216	2.6	216	82	8	663	31	23	15	29	1.96
1375880--1375989	37	3.0	37	85	2	132	22	20	16	40	1.91
1377137--1377211	29	2.4	32	76	17	86	6	18	2	72	1.19
1377137--1377241	16	6.7	15	71	20	65	6	19	1	72	1.16
1377886--1378216	165	2.0	166	99	0	655	32	20	16	30	1.95
1392818--1392871	25	2.2	25	96	0	99	20	24	11	44	1.83
1406602--1406658	28	2.0	28	82	0	69	40	33	14	12	1.83
1410910--1411358	226	2.0	225	87	5	643	30	11	18	39	1.86
1411592--1411638	18	2.7	17	86	3	67	27	31	6	34	1.82
1415347--1415454	48	2.2	48	96	0	198	37	19	18	24	1.93
1416728--1416759	10	3.1	11	86	13	50	18	18	31	31	1.95
1418014--1418074	15	3.9	16	77	16	65	54	0	0	45	1.00
1418030--1418085	15	3.5	15	75	20	51	53	0	0	46	1.00
1420932--1420981	16	3.1	16	94	2	82	64	4	0	32	1.12
1420947--1420985	20	2.0	20	94	0	69	64	2	0	33	1.08
1420932--1420986	8	6.8	8	78	2	56	61	3	0	34	1.13
1422999--1423023	12	2.1	12	100	0	50	24	8	8	60	1.52
1423088--1423146	22	2.5	24	78	18	70	59	0	3	37	1.14
1429644--1429669	12	2.2	12	100	0	52	23	0	53	23	1.46
1430353--1430436	21	3.9	21	69	14	55	14	22	36	26	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1439474--1439507	17	2.0	17	94	0	59	23	14	23	38	1.92
1441214--1441256	2	21.5	2	100	0	86	51	0	0	48	1.00
1442931--1442968	17	2.2	17	90	0	58	21	2	36	39	1.67
1443149--1443203	15	3.6	16	70	20	55	41	0	14	43	1.45
1443102--1443207	30	3.5	30	86	2	140	38	0	14	46	1.51
1443261--1443294	15	2.2	16	94	5	61	38	0	5	55	1.24
1443290--1443322	16	2.1	16	100	0	66	18	0	6	75	1.00
1444522--1444566	23	2.0	23	86	0	63	37	4	2	55	1.32
1444516--1444565	23	2.3	21	80	10	55	38	4	2	56	1.30
1445515--1445635	59	2.1	56	90	4	188	49	7	4	38	1.50
1445720--1445972	14	18.3	14	68	18	120	45	10	1	42	1.49
1445707--1446014	11	25.2	12	69	15	134	46	9	1	42	1.48
1445722--1445839	25	4.7	26	78	5	89	43	10	2	44	1.51
1445852--1446072	19	11.7	19	65	24	60	48	11	1	38	1.48
1445810--1446095	61	4.6	60	77	17	282	47	11	1	39	1.49
1445889--1446033	11	13.6	11	73	21	80	48	11	0	39	1.45
1445997--1446043	19	2.5	19	96	0	85	46	21	0	31	1.51
1446303--1446624	49	6.6	49	89	3	445	44	12	1	41	1.50
1446348--1446380	14	2.4	14	90	5	50	42	21	0	36	1.53
1449634--1449795	83	2.0	82	93	1	279	50	8	2	39	1.45
1449825--1449851	14	1.9	14	100	0	54	74	14	3	7	1.18
1450258--1450311	28	1.9	28	96	0	99	57	12	0	29	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1450254--1450318	28	2.3	28	84	10	96	55	10	0	33	1.35
1450288--1450336	21	2.3	21	85	3	71	53	16	0	30	1.43
1463935--1463977	23	1.9	22	90	4	68	72	4	0	23	1.04
1465499--1465571	31	2.4	31	86	6	96	45	15	9	30	1.78
1466916--1466971	19	3.0	18	77	12	60	32	21	30	16	1.95
1475203--1475243	14	3.4	12	81	18	50	48	4	0	46	1.23
1476256--1476366	57	1.9	58	94	1	197	45	19	10	23	1.82
1479296--1479795	55	9.1	54	79	11	280	31	24	14	29	1.95
1479329--1479790	110	4.2	110	85	6	591	30	24	14	30	1.95
1479329--1479790	161	2.8	164	81	9	559	30	24	14	30	1.95
1481126--1481171	20	2.2	22	77	14	53	4	19	2	73	1.10
1481125--1481166	21	2.0	21	86	9	59	4	16	2	76	1.07
1481185--1481243	31	1.9	30	86	3	82	6	18	1	72	1.15
1481267--1481313	9	5.2	9	77	10	51	4	12	2	80	0.94
1481204--1481290	31	2.8	30	75	10	77	8	16	2	73	1.17
1481266--1481313	17	2.7	18	87	6	62	6	12	2	79	1.01
1489537--1490140	149	4.0	149	98	0	1154	35	20	15	28	1.93
1490284--1490308	8	3.1	8	100	0	50	36	24	12	28	1.91
1494599--1495198	149	4.0	149	97	0	1132	35	20	15	28	1.93
1499376--1499479	45	2.3	46	91	3	165	39	20	9	30	1.84
1503129--1503396	34	7.5	34	73	14	127	40	3	8	47	1.52
1503254--1503278	11	2.3	11	100	0	50	40	8	8	44	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1503208--1503540	34	9.5	35	75	15	210	43	3	5	46	1.45
1503219--1503401	69	2.6	68	80	8	201	42	3	6	46	1.47
1503366--1503489	42	3.1	41	80	10	157	45	3	4	45	1.40
1503459--1503594	30	4.4	29	68	19	71	47	2	5	45	1.37
1504683--1504714	14	2.2	15	94	5	57	31	9	0	59	1.29
1513063--1513093	16	1.9	16	93	0	53	54	16	9	19	1.68
1514547--1514588	22	2.0	21	90	4	66	69	4	0	26	1.08
1516437--1516526	21	4.3	21	94	0	144	24	27	24	23	2.00
1516437--1516534	42	2.3	42	91	0	160	23	27	25	23	2.00
1518601--1518716	57	2.0	58	94	1	207	31	25	21	21	1.98

Tables:   1   2   3   4   5   6   7   8   9