genome.fa.s9343.2.7.7.80.10.50.1000.8.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: VEPZ01009343.1 Hibiscus syriacus cultivar Beakdansim tig00113123_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2141224

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  8  of  11  ( 1269 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)
1414032--1414073	21	1.9	22	90	9	68	28	19	35	16	1.93
1414069--1414099	16	1.9	16	100	0	62	29	25	25	19	1.99
1425080--1425358	137	2.0	137	98	0	540	30	21	16	31	1.95
1429680--1429704	2	12.5	2	100	0	50	52	0	48	0	1.00
1441661--1441691	12	2.6	12	94	0	53	51	25	0	22	1.48
1443726--1443775	25	2.0	26	92	4	84	30	16	26	28	1.96
1444225--1444258	16	2.1	16	88	0	50	35	8	23	32	1.86
1448303--1448352	25	2.0	26	88	4	75	32	16	24	28	1.96
1452053--1452185	71	1.9	71	80	3	160	21	5	15	57	1.58
1456102--1456145	2	22.0	2	100	0	88	50	0	0	50	1.00
1459014--1459044	4	7.8	4	92	0	53	70	0	3	25	1.02
1461272--1461329	26	2.5	22	83	11	62	41	0	17	41	1.49
1461874--1461918	23	2.0	23	86	0	63	20	26	26	26	1.99
1462017--1462048	2	16.0	2	100	0	64	50	0	0	50	1.00
1462179--1462213	18	1.9	18	94	0	61	57	0	8	34	1.29
1462182--1462219	15	2.8	13	88	11	51	57	0	7	34	1.28
1464538--1464579	17	2.5	17	80	7	50	47	4	16	30	1.67
1464853--1464990	72	1.9	73	88	4	208	23	20	23	31	1.98
1473432--1473595	72	2.3	72	86	1	220	24	18	25	31	1.98
1476303--1476338	2	18.0	2	100	0	72	50	0	0	50	1.00
1478089--1478118	13	2.4	13	94	5	53	30	0	13	56	1.37
1478587--1478668	40	2.0	40	97	0	155	23	13	26	36	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1482965--1483021	7	8.1	7	100	0	114	56	0	29	14	1.39
1492704--1492769	35	1.9	34	90	3	105	33	3	7	56	1.43
1492987--1493065	34	2.2	35	84	6	97	34	3	3	58	1.34
1492501--1493094	295	2.0	298	91	3	957	43	5	6	44	1.53
1494012--1494231	31	7.1	31	98	0	422	33	21	18	26	1.97
1494303--1494392	21	4.3	20	70	8	63	42	23	11	23	1.86
1495536--1495594	31	1.9	31	85	0	82	37	27	6	28	1.82
1496543--1496607	30	2.2	30	82	0	76	30	12	12	44	1.79
1496543--1496617	30	2.5	29	76	8	69	32	16	10	41	1.82
1497653--1497822	44	4.0	43	78	9	168	36	24	15	22	1.94
1497676--1497822	21	6.9	21	77	3	141	37	24	14	23	1.93
1497650--1497738	23	4.0	23	79	5	92	37	25	16	20	1.93
1497676--1497822	42	3.5	42	82	1	159	37	24	14	23	1.93
1499644--1499724	40	2.0	40	92	0	135	51	9	13	24	1.71
1500770--1500844	24	3.2	24	80	16	86	50	0	4	45	1.20
1500777--1500837	25	2.5	26	77	22	69	54	0	3	42	1.17
1500771--1500829	22	2.6	22	84	10	75	50	0	5	44	1.24
1501085--1501195	39	2.8	39	75	12	120	45	2	17	35	1.63
1503282--1503327	5	8.8	5	81	9	56	43	4	0	52	1.21
1506579--1506621	17	2.6	17	88	3	61	65	4	4	25	1.32
1508721--1508772	16	3.3	16	74	15	54	34	3	0	61	1.14
1517271--1518227	399	2.4	400	98	0	1871	29	13	17	39	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1519297--1519358	30	2.1	30	84	0	79	14	29	20	35	1.93
1519317--1519381	9	6.4	11	72	22	61	9	29	24	36	1.86
1519336--1519381	20	2.3	20	96	0	83	8	28	26	36	1.86
1519482--1520294	403	2.0	402	98	0	1554	29	12	18	39	1.87
1521133--1521199	30	2.2	30	86	0	98	11	29	23	34	1.91
1521142--1521197	9	5.5	11	75	23	52	7	30	25	37	1.82
1524310--1524401	41	2.3	41	86	1	123	35	19	15	29	1.92
1524314--1524401	20	4.3	20	74	8	79	34	20	15	29	1.94
1524407--1524565	20	7.9	20	82	2	185	39	25	18	16	1.91
1524395--1524561	40	4.2	40	86	2	228	40	26	17	16	1.90
1524395--1524565	60	2.8	60	82	5	220	39	26	18	15	1.90
1524674--1524720	22	2.1	22	88	0	67	21	44	12	21	1.85
1525067--1525127	20	3.3	20	63	25	53	49	24	14	11	1.77
1525128--1525181	20	2.7	19	80	8	63	14	12	22	50	1.77
1527308--1527398	21	4.3	21	76	8	78	23	34	18	24	1.96
1527302--1527398	42	2.3	42	80	7	124	23	34	17	24	1.96
1528949--1529014	20	3.3	20	93	0	114	15	18	25	40	1.89
1529300--1529335	18	2.0	18	94	0	63	19	2	22	55	1.56
1531525--1531558	12	2.8	12	90	0	50	14	0	29	55	1.40
1532152--1532190	15	2.5	15	83	4	51	66	0	5	28	1.12
1532347--1532393	19	2.5	19	92	0	76	31	8	23	36	1.85
1532367--1532458	19	4.7	19	85	5	87	30	13	22	33	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1532348--1532538	20	9.6	20	79	6	140	25	13	23	38	1.91
1532367--1532539	40	4.3	40	86	6	156	24	14	23	37	1.92
1532446--1532552	20	5.3	20	85	0	151	17	14	26	42	1.87
1532406--1532538	60	2.2	61	81	6	155	21	14	24	39	1.90
1532425--1532573	40	3.7	41	91	6	218	20	15	24	40	1.91
1532425--1532573	60	2.5	60	80	7	151	20	15	24	40	1.91
1532425--1532617	80	2.4	79	81	9	196	21	14	25	38	1.92
1541808--1541854	20	2.3	20	96	0	85	63	4	10	21	1.43
1541903--1542029	2	65.5	2	84	9	174	50	0	1	47	1.16
1542957--1542995	20	2.0	20	94	0	69	48	7	0	43	1.31
1546181--1546219	20	2.0	20	84	0	51	23	7	23	46	1.78
1546395--1546456	20	2.9	21	78	9	63	17	25	33	22	1.96
1550382--1550853	236	2.0	235	99	0	926	18	22	16	43	1.88
1552780--1552876	30	3.1	30	70	18	99	41	4	3	51	1.36
1552815--1552980	22	7.5	22	74	17	114	46	3	4	46	1.37
1552860--1552919	28	2.2	27	85	11	79	46	5	3	45	1.41
1552797--1552980	91	2.0	88	88	6	271	45	3	3	47	1.37
1552886--1553082	20	9.9	20	70	14	104	45	3	4	46	1.39
1552791--1553001	63	3.3	63	75	17	175	44	3	3	48	1.37
1552790--1552980	11	18.5	11	69	18	63	45	3	3	48	1.36
1553029--1553082	22	2.6	19	88	8	72	46	1	3	48	1.30
1553145--1553202	11	5.5	11	78	15	52	50	10	1	37	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1553145--1553273	13	9.5	13	68	16	59	48	9	3	38	1.54
1553224--1553277	17	3.2	17	79	7	58	50	5	3	40	1.44
1553230--1553269	9	4.6	9	81	6	55	52	7	2	37	1.43
1553195--1553435	77	3.2	75	80	6	256	43	6	6	43	1.56
1553377--1553473	40	2.4	39	83	5	106	45	4	4	46	1.41
1553412--1553519	20	5.0	21	65	18	51	40	3	6	49	1.46
1553430--1553488	27	2.2	26	87	3	82	42	3	3	50	1.35
1553430--1553500	27	2.7	27	84	2	81	40	4	4	50	1.41
1553587--1553651	27	2.4	27	84	0	85	43	4	3	49	1.39
1553607--1553654	15	3.5	14	83	13	64	47	4	0	47	1.21
1553795--1553926	51	2.6	52	90	1	203	46	4	6	41	1.51
1553718--1553926	18	12.0	18	69	15	127	45	5	5	42	1.51
1554563--1554687	64	1.9	65	86	1	180	29	21	18	30	1.97
1560771--1560855	21	3.7	23	75	12	86	25	23	22	28	1.99
1562582--1562668	2	44.0	2	97	2	167	49	0	0	50	1.00
1563324--1563429	45	2.3	46	90	1	169	29	19	19	31	1.97
1564286--1564352	2	34.0	2	96	3	127	49	0	0	50	1.00
1564490--1564543	21	2.6	21	90	0	90	31	31	18	18	1.95
1567877--1567915	20	2.0	20	89	0	60	33	10	23	33	1.88
1570567--1570619	17	3.1	17	97	0	97	35	18	16	28	1.93
1573250--1573390	72	2.0	72	92	0	237	27	26	12	34	1.92
1582827--1583002	90	2.0	90	95	0	316	32	19	10	37	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1585337--1585392	19	2.9	19	78	7	60	41	0	1	57	1.09
1585326--1585400	31	2.4	30	84	4	87	37	0	1	61	1.05
1587134--1587197	21	3.0	21	88	6	85	18	34	26	20	1.96
1587725--1587812	33	2.8	32	85	9	112	57	4	3	34	1.35
1588177--1589000	122	6.7	125	86	9	1168	33	21	23	21	1.97
1588176--1589000	247	3.4	249	88	7	1193	33	21	23	21	1.97
1589079--1589119	8	5.2	8	82	5	57	36	29	0	34	1.58
1592530--1592567	19	2.1	19	85	9	53	57	2	0	39	1.12
1593012--1593397	191	2.0	195	96	3	719	39	18	7	34	1.79
1593884--1593950	28	2.4	27	80	9	73	17	22	14	44	1.86

Tables:   1   2   3   4   5   6   7   8   9   10   11