genome.fa.s7748.2.7.7.80.10.50.1000.8.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: VEPZ01007748.1 Hibiscus syriacus cultivar Beakdansim tig00110013_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4568288

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   

This is table  8  of  24  ( 2778 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)
1424447--1424503	19	3.0	19	81	0	69	36	21	8	33	1.84
1426364--1426420	23	2.5	23	85	0	78	43	21	14	21	1.87
1430709--1430813	37	2.7	38	88	7	149	45	6	3	43	1.48
1432802--1432840	21	1.9	19	85	10	51	33	23	0	43	1.54
1436653--1436691	21	1.9	19	85	10	51	33	23	0	43	1.54
1444409--1444438	2	15.0	2	100	0	60	50	0	0	50	1.00
1444438--1444505	2	34.0	2	100	0	136	0	0	50	50	1.00
1445829--1445874	18	2.7	17	81	15	51	47	2	15	34	1.57
1446303--1446344	22	2.0	22	90	4	68	19	19	35	26	1.95
1456310--1456348	20	1.9	21	89	5	62	58	5	12	23	1.54
1462802--1462859	24	2.4	24	97	0	107	51	15	15	17	1.76
1462817--1462869	14	4.1	14	76	18	69	54	15	15	15	1.71
1463405--1463544	60	2.3	60	85	8	187	39	3	25	31	1.73
1463410--1463576	60	2.8	60	80	11	157	41	3	22	32	1.71
1464288--1464331	16	2.7	17	72	13	56	52	0	2	45	1.13
1485034--1485084	19	2.7	19	93	3	86	35	21	25	17	1.95
1489504--1489557	20	2.8	20	80	2	65	18	18	25	37	1.94
1493082--1493134	2	26.5	2	100	0	106	50	0	0	49	1.00
1493264--1493315	24	2.2	24	92	0	86	38	23	19	19	1.93
1493312--1493382	23	3.1	23	76	8	72	33	23	23	18	1.96
1498227--1498293	23	2.9	23	79	0	80	32	25	23	17	1.97
1500837--1500893	24	2.4	25	79	8	73	38	22	17	21	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1512925--1513007	30	2.6	32	75	19	84	49	2	2	45	1.28
1513474--1513512	2	19.5	2	100	0	78	48	0	0	51	1.00
1516918--1516950	17	1.9	18	88	11	52	45	0	0	54	0.99
1517624--1517661	2	19.0	2	100	0	76	50	0	0	50	1.00
1532645--1532694	24	2.1	24	92	0	82	46	16	14	24	1.83
1532780--1533036	129	2.0	128	99	0	505	45	21	7	25	1.79
1533461--1533569	19	5.2	19	73	20	76	43	0	1	54	1.17
1533485--1533569	23	3.7	25	79	17	89	45	1	0	52	1.08
1535181--1535416	127	1.9	127	100	0	472	29	18	28	23	1.98
1536018--1536079	18	3.2	20	78	19	62	61	0	1	37	1.06
1536047--1536244	64	3.1	61	85	11	204	57	1	0	40	1.12
1536074--1536225	64	2.4	65	93	6	269	55	1	0	42	1.11
1536095--1536178	40	2.2	37	87	10	116	54	1	0	44	1.07
1536129--1536210	24	3.2	26	81	13	100	56	1	0	42	1.07
1536982--1537526	22	25.8	22	80	8	600	43	0	8	47	1.34
1536966--1537528	44	13.4	43	90	5	786	43	0	8	47	1.33
1536966--1537526	87	6.7	86	88	6	775	43	0	8	47	1.33
1537058--1537555	65	7.7	61	81	7	340	42	0	8	48	1.34
1537512--1537564	25	2.0	27	89	10	83	37	0	1	60	1.08
1537575--1537633	31	1.9	31	96	0	109	44	6	5	44	1.52
1543049--1543185	65	2.1	66	81	10	158	27	0	13	57	1.42
1544097--1544144	20	2.4	20	96	0	87	18	4	8	68	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1547274--1547319	21	2.2	21	84	0	56	30	30	26	13	1.93
1547343--1547384	22	2.0	22	85	4	59	28	35	28	7	1.84
1548047--1548220	31	5.6	31	94	0	303	18	17	22	40	1.91
1551330--1551375	21	2.2	21	88	0	65	32	30	23	13	1.93
1551399--1551447	22	2.2	22	82	7	64	32	30	28	8	1.86
1552357--1552561	31	6.6	31	94	0	356	19	17	22	40	1.91
1558507--1558671	76	2.2	75	86	3	233	30	2	10	56	1.45
1559308--1559348	21	1.9	22	95	5	75	21	2	0	75	0.92
1561002--1561209	48	4.5	47	88	3	271	35	21	6	36	1.80
1561314--1561395	40	2.0	40	97	0	155	32	26	15	24	1.95
1568438--1568658	48	4.8	47	86	3	263	34	22	6	36	1.80
1568763--1568844	40	2.0	40	95	0	146	32	25	15	25	1.96
1577710--1577765	18	3.2	18	71	2	60	19	8	10	60	1.55
1579295--1579659	99	3.7	99	79	5	364	33	10	18	37	1.85
1580133--1580242	55	2.0	55	87	0	157	26	15	21	36	1.93
1581163--1581381	98	2.2	101	79	7	241	34	7	13	44	1.72
1581650--1581764	38	3.0	38	80	7	126	33	18	0	47	1.54
1582389--1582424	18	2.0	18	88	0	54	66	0	2	30	1.06
1584952--1585025	37	2.0	36	82	7	87	66	1	9	22	1.29
1584982--1585019	20	1.9	20	88	0	58	63	2	7	26	1.35
1586161--1586686	105	5.0	104	87	5	674	22	18	26	33	1.96
1586161--1586686	210	2.5	205	87	5	754	22	18	26	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1586893--1586962	36	1.9	36	91	0	113	40	14	20	25	1.90
1586861--1587180	106	3.1	105	90	3	479	36	11	21	30	1.88
1587083--1587157	39	1.9	39	83	5	98	37	13	22	26	1.91
1587302--1587415	36	3.2	36	73	2	113	43	14	16	25	1.85
1587261--1587431	72	2.3	74	85	7	215	41	13	18	26	1.88
1588574--1588925	183	1.9	183	92	1	589	30	20	20	27	1.98
1593087--1593127	21	2.0	21	86	9	59	68	0	7	24	1.15
1593089--1593136	21	2.6	18	77	22	55	70	0	8	20	1.12
1593119--1593156	20	1.9	20	88	0	58	63	2	7	26	1.35
1593155--1593180	3	8.7	3	100	0	52	69	0	0	30	0.89
1604205--1604261	30	1.9	30	92	0	96	45	7	0	47	1.30
1607860--1607900	18	2.3	18	86	0	55	39	9	4	46	1.58
1620565--1620609	20	2.2	20	92	0	72	28	24	11	35	1.90
1624175--1624219	21	2.1	21	91	0	72	42	11	31	15	1.82
1624252--1624317	33	2.0	33	93	0	114	30	0	46	22	1.52
1626403--1627143	201	3.7	201	91	0	1194	35	13	17	32	1.89
1628855--1628881	14	1.9	14	100	0	54	29	7	11	51	1.64
1629916--1630407	251	2.0	251	86	4	697	37	15	16	30	1.89
1632336--1632362	14	1.9	14	100	0	54	55	0	14	29	1.40
1634611--1634650	21	1.9	21	89	0	62	10	25	40	25	1.86
1638496--1638535	21	1.9	21	85	10	55	35	10	2	52	1.48
1642746--1642880	73	1.9	72	83	10	177	31	17	22	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1642724--1642881	73	2.2	73	80	10	173	31	17	22	29	1.96
1644717--1644762	2	23.0	2	100	0	92	50	0	0	50	1.00
1644992--1645052	24	2.5	26	84	12	76	18	4	0	77	0.95
1644961--1645064	19	5.6	19	70	15	83	20	4	2	72	1.16
1644963--1645059	10	9.9	10	68	15	60	18	5	3	73	1.16
1649104--1649441	180	1.9	180	94	0	604	28	20	20	30	1.98
1650595--1650724	36	3.6	36	70	6	102	24	18	13	43	1.87
1650606--1650839	72	3.2	73	84	3	294	27	17	13	40	1.88
1650903--1651057	65	2.4	65	78	4	170	30	16	10	41	1.83
1650952--1651318	102	3.6	101	83	1	412	30	16	12	40	1.86
1650856--1651176	167	1.9	166	89	0	498	30	16	12	41	1.84
1651221--1651454	36	6.4	36	70	15	129	26	19	14	39	1.89
1651472--1651557	37	2.5	34	90	7	129	40	18	9	31	1.82
1652714--1652743	2	15.0	2	100	0	60	50	0	0	50	1.00
1652733--1652822	40	2.3	39	83	11	103	30	2	3	64	1.22
1652945--1653064	9	13.1	9	73	11	75	16	5	4	74	1.16
1652976--1653024	4	11.8	4	79	16	55	18	2	2	77	0.96
1652974--1653064	26	3.5	26	75	15	80	16	4	2	76	1.04
1653043--1653087	18	2.8	15	78	18	54	24	2	4	68	1.19
1665317--1665345	2	14.5	2	100	0	58	51	0	0	48	1.00
1666885--1666921	18	2.0	19	89	5	58	43	0	13	43	1.44
1666850--1667001	45	3.9	37	67	18	110	50	0	7	41	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1666918--1667048	45	2.7	45	89	9	181	51	0	6	41	1.29
1666896--1667084	31	5.8	33	70	21	123	49	0	6	43	1.29
1666940--1667080	53	2.6	53	79	11	171	50	0	6	43	1.27
1668533--1668729	74	2.6	75	82	4	238	22	24	29	22	1.99
1671311--1671350	21	1.9	21	89	0	62	10	25	40	25	1.86
1671333--1671393	20	2.9	21	87	7	79	18	26	34	21	1.96
1677127--1677326	75	2.7	76	86	3	262	20	24	32	23	1.98
1677625--1677739	44	2.4	46	83	16	146	40	6	0	52	1.32
1677653--1677745	44	2.1	44	94	4	161	38	8	1	51	1.40
1677665--1677806	22	6.1	22	67	16	81	41	7	0	50	1.34

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