genome.fa.s8061.2.7.7.80.10.50.1000.8.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: VEPZ01008061.1 Hibiscus syriacus cultivar Beakdansim tig00110556_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5800122

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   

This is table  8  of  26  ( 3118 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)
1321199--1321240	12	3.5	12	83	6	50	69	7	0	23	1.13
1323158--1323205	20	2.5	19	83	6	69	47	25	16	10	1.78
1323562--1323632	22	3.2	22	89	2	106	22	14	40	22	1.89
1323809--1323878	20	3.5	20	92	0	104	24	18	22	34	1.96
1323790--1323880	40	2.3	39	79	12	96	23	17	21	37	1.94
1324160--1324219	26	2.3	26	88	0	84	61	1	0	36	1.06
1324174--1324218	11	3.7	12	86	13	65	66	0	0	33	0.92
1326292--1326319	14	2.0	14	100	0	56	42	7	7	42	1.59
1326429--1326608	90	2.0	90	98	0	351	43	12	9	34	1.74
1326866--1326911	20	2.2	22	92	7	78	58	0	4	36	1.18
1330391--1330470	31	2.6	31	82	4	81	47	6	3	42	1.46
1330412--1330500	31	2.8	32	85	6	103	44	6	3	44	1.46
1330425--1330500	32	2.4	32	86	6	102	48	6	2	42	1.43
1334397--1334493	48	2.0	48	95	0	176	31	5	30	31	1.80
1344173--1344272	51	1.9	52	91	2	166	21	21	15	43	1.88
1348035--1348093	15	4.1	15	72	12	52	42	0	1	55	1.09
1348047--1348111	28	2.2	32	86	10	93	40	1	0	58	1.07
1348077--1348193	44	2.6	45	86	4	175	41	5	2	50	1.38
1349149--1349238	38	2.4	38	89	10	141	38	38	11	11	1.76
1349409--1349488	37	2.2	37	95	0	142	38	40	10	11	1.75
1349657--1349743	37	2.4	37	92	0	138	36	40	10	12	1.78
1349107--1349971	258	3.4	255	86	9	1209	36	27	11	23	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1352344--1352388	20	2.4	19	81	7	56	40	6	26	26	1.81
1352599--1352645	24	2.0	24	87	4	69	40	2	0	57	1.11
1363963--1364095	20	6.5	20	68	14	65	37	23	18	21	1.94
1364026--1364320	20	14.6	20	75	10	219	39	25	17	17	1.91
1364087--1364298	41	5.2	41	90	3	306	39	25	16	17	1.91
1364350--1364395	20	2.3	20	88	7	67	34	21	19	23	1.96
1365258--1365300	22	2.0	22	95	0	77	23	23	23	30	1.99
1367716--1367784	33	2.1	34	91	2	113	15	23	15	44	1.85
1367991--1368079	20	4.4	21	83	5	114	37	24	20	17	1.94
1367991--1368079	40	2.2	40	90	4	144	37	24	20	17	1.94
1368073--1368138	33	2.0	33	90	3	105	45	18	24	12	1.83
1368294--1368330	14	2.6	14	86	0	56	48	21	0	29	1.50
1369683--1369794	42	2.7	42	76	5	111	23	17	38	20	1.93
1370274--1370380	20	5.3	20	93	0	151	38	21	17	22	1.93
1370414--1370457	19	2.3	19	88	0	61	13	15	27	43	1.85
1370423--1370492	19	3.9	19	80	17	87	7	14	28	50	1.69
1370429--1370492	33	1.9	33	93	0	110	7	14	28	50	1.70
1370448--1370474	14	1.9	14	100	0	54	7	14	29	48	1.71
1370414--1370539	52	2.5	52	81	2	148	11	18	24	46	1.81
1370461--1370563	19	5.7	19	73	16	60	11	19	21	47	1.81
1370424--1370561	52	2.7	51	79	4	125	10	18	23	47	1.80
1370627--1370847	94	2.4	94	93	0	390	49	19	11	19	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1372443--1372498	20	2.8	20	80	20	80	39	19	25	16	1.91
1372483--1372555	33	2.2	33	95	0	128	46	21	20	10	1.81
1372496--1372555	19	3.4	18	71	21	56	48	21	18	11	1.80
1372561--1372632	20	3.5	20	84	5	92	12	16	19	51	1.76
1373191--1373384	40	4.8	41	89	1	293	18	18	24	38	1.93
1373191--1373384	20	9.6	20	76	4	183	18	18	24	38	1.93
1373393--1373445	20	2.7	20	91	5	81	13	18	24	43	1.86
1373439--1373491	21	2.5	21	73	11	54	24	18	24	32	1.97
1373433--1373527	20	4.7	20	69	18	61	21	18	27	32	1.97
1373876--1373909	15	2.3	15	100	0	68	50	14	5	29	1.67
1375726--1375768	11	4.0	11	78	6	52	48	4	0	46	1.22
1383626--1383655	15	2.1	14	93	6	51	16	16	26	40	1.90
1387195--1387229	17	1.9	19	88	11	56	51	8	2	37	1.47
1387532--1387573	22	1.9	22	85	9	59	40	9	7	42	1.65
1388452--1388490	20	2.0	20	100	0	78	25	33	30	10	1.89
1392823--1392861	21	1.9	20	85	15	53	15	5	28	51	1.64
1395951--1396053	30	3.4	30	89	0	161	33	23	18	25	1.97
1396039--1396103	31	2.1	31	85	0	85	33	23	18	24	1.96
1397000--1397172	64	2.7	63	78	8	170	29	22	14	33	1.94
1400507--1400579	30	2.4	30	95	0	128	30	24	20	24	1.99
1401517--1401574	20	2.7	20	86	10	71	25	20	20	32	1.97
1401562--1401702	64	2.2	63	81	7	160	26	22	17	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1405376--1405443	10	7.0	9	78	15	64	17	25	25	32	1.97
1405377--1405475	9	10.3	9	75	12	72	16	25	27	31	1.96
1405378--1405475	19	5.1	19	76	14	69	15	25	27	31	1.95
1405376--1405446	29	2.4	31	86	9	103	18	25	25	30	1.98
1405377--1405475	29	3.4	28	81	5	90	16	25	27	31	1.96
1405489--1405526	17	2.2	17	100	0	76	18	47	23	10	1.79
1405472--1405519	22	2.2	22	100	0	96	18	50	22	8	1.74
1405516--1405546	7	4.4	7	91	0	53	19	25	29	25	1.99
1405471--1405514	12	3.8	12	82	11	65	18	47	22	11	1.80
1412706--1412799	10	9.8	9	72	13	62	18	25	26	29	1.98
1412706--1412773	9	6.9	10	75	18	54	19	26	23	30	1.98
1412707--1412805	29	3.4	29	80	8	112	17	27	26	29	1.97
1412706--1412803	19	5.1	19	77	13	83	18	25	26	29	1.98
1412819--1412856	17	2.2	17	100	0	76	18	47	23	10	1.79
1412802--1412849	22	2.2	22	100	0	96	18	50	22	8	1.74
1412846--1412876	7	4.4	7	91	0	53	19	25	29	25	1.99
1412801--1412844	12	3.8	12	82	11	65	18	47	22	11	1.80
1414474--1414509	15	2.4	15	100	0	72	5	13	11	69	1.34
1415893--1415923	2	15.5	2	100	0	62	51	0	0	48	1.00
1417683--1417712	2	15.0	2	100	0	60	50	0	0	50	1.00
1419072--1419118	25	2.0	23	87	8	67	31	0	0	68	0.90
1422072--1422096	10	2.5	10	100	0	50	0	0	8	92	0.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1431235--1431291	29	1.9	30	86	10	82	17	19	15	47	1.83
1433148--1433179	2	16.0	2	100	0	64	50	0	0	50	1.00
1439773--1440165	195	2.0	195	97	2	736	37	6	27	28	1.81
1451238--1451830	294	2.0	298	94	2	1052	29	19	15	36	1.92
1457183--1457240	17	3.0	20	71	19	52	56	3	1	37	1.26
1457429--1457453	2	12.5	2	100	0	50	48	0	0	52	1.00
1459111--1459154	20	2.3	19	81	11	54	36	0	0	63	0.95
1460102--1460141	21	1.9	21	84	0	53	25	10	20	45	1.81
1470550--1470691	33	4.5	33	73	12	145	44	6	2	47	1.40
1470522--1470698	92	1.9	91	97	1	336	42	6	3	47	1.45
1473599--1473659	20	2.9	21	87	7	79	18	26	34	21	1.96
1484117--1484218	48	2.1	48	80	7	109	39	4	3	51	1.42
1486700--1486761	16	3.5	17	75	16	54	41	4	20	32	1.74
1486826--1487019	32	6.1	32	86	5	236	26	17	21	35	1.95
1487643--1487695	22	2.4	21	81	6	61	28	22	26	22	1.99
1488340--1488374	13	2.8	12	91	8	52	62	0	0	37	0.95
1488901--1489001	48	2.0	48	87	9	141	44	19	13	21	1.86
1496244--1496321	15	5.4	15	69	9	72	47	0	0	52	1.00
1496221--1496328	57	1.9	57	90	7	175	46	0	0	52	1.06
1496259--1496361	42	2.5	42	87	6	138	46	0	0	52	1.07
1496325--1496369	21	2.1	22	88	12	67	53	0	2	44	1.13
1497458--1497500	2	21.5	2	90	9	70	48	2	0	48	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1498972--1499038	27	2.5	27	85	4	82	46	10	2	40	1.53
1498897--1499166	138	2.0	134	91	6	442	41	10	6	41	1.66
1506624--1506870	92	2.7	92	78	5	270	26	27	23	22	2.00
1513994--1514064	23	3.2	21	82	9	79	23	23	29	22	1.99
1522704--1522740	18	2.1	18	85	14	51	24	5	0	70	1.08
1527987--1528029	19	2.4	17	77	14	50	41	6	4	46	1.51
1535709--1535787	32	2.5	32	97	0	149	39	29	15	16	1.89
1536587--1536852	142	1.9	142	89	1	417	22	25	28	23	1.99
1537213--1537260	21	2.2	21	85	10	62	33	4	4	58	1.36
1537173--1537247	25	2.7	30	71	26	74	34	1	5	58	1.29

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26