genome.fa.s9572.2.7.7.80.10.50.1000.7.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: VEPZ01009572.1 Hibiscus syriacus cultivar Beakdansim tig00116937_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2529503

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  7  of  13  ( 1477 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)
1334877--1334945	19	3.5	20	74	14	65	26	27	27	18	1.98
1334875--1334945	10	7.3	10	73	19	53	25	26	29	18	1.98
1337258--1337297	13	3.2	13	85	7	55	5	17	2	75	1.10
1337436--1337475	13	3.2	13	85	7	55	5	17	2	75	1.10
1337208--1337566	178	2.0	180	98	1	704	23	15	15	44	1.85
1341887--1341953	20	3.3	20	81	4	73	29	29	19	20	1.97
1343232--1343277	15	2.9	16	84	12	60	60	0	30	8	1.26
1345269--1345475	64	3.2	62	80	6	173	31	23	16	28	1.96
1345324--1345477	64	2.4	63	88	4	211	29	23	16	29	1.96
1345772--1345835	20	3.1	20	71	13	58	53	3	1	42	1.26
1346313--1346409	7	13.9	7	81	0	104	48	34	0	17	1.48
1347787--1347831	12	3.8	12	82	5	65	35	24	20	20	1.96
1347786--1347830	23	2.0	23	100	0	90	35	22	22	20	1.96
1349405--1349454	24	2.1	24	88	7	75	58	14	2	26	1.47
1354973--1355022	24	2.1	24	88	7	75	58	14	2	26	1.47
1364157--1364194	18	2.1	18	90	9	60	28	26	28	15	1.96
1372565--1372602	20	1.9	20	94	0	67	31	34	15	18	1.92
1372565--1372771	64	3.2	63	85	6	204	30	24	17	27	1.97
1372615--1372773	64	2.5	63	90	4	239	29	24	16	28	1.97
1372615--1372791	64	2.8	62	86	6	230	28	24	17	28	1.97
1373869--1373952	24	3.5	24	77	3	80	28	19	19	33	1.96
1374981--1375017	17	2.1	18	90	5	58	37	0	29	32	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1378990--1379111	64	1.9	64	96	0	226	20	15	17	46	1.84
1379561--1379610	23	2.2	23	85	0	64	24	0	6	70	1.10
1379817--1380388	287	2.0	285	84	5	751	30	11	20	37	1.87
1380808--1380942	5	27.0	5	100	0	270	60	0	0	40	0.97
1384803--1384846	5	9.2	5	80	9	56	2	18	56	22	1.52
1384802--1384847	14	3.3	14	87	0	74	2	19	54	23	1.55
1384802--1384848	24	1.9	25	87	12	71	2	19	53	25	1.56
1384844--1384883	19	2.1	19	90	0	62	25	27	27	20	1.99
1391973--1392002	5	6.2	5	92	7	53	0	20	60	20	1.37
1391973--1392002	14	2.1	15	93	6	53	0	20	60	20	1.37
1391972--1392002	9	3.3	9	91	8	53	0	22	58	19	1.40
1392008--1392044	19	1.9	19	88	0	56	35	29	18	16	1.93
1396959--1396988	14	2.1	14	100	0	60	23	6	30	40	1.80
1398025--1398113	18	4.9	18	81	0	115	22	25	17	33	1.96
1398025--1398125	36	2.8	36	84	0	130	23	24	17	33	1.96
1398026--1398141	54	2.1	54	80	0	133	24	23	17	35	1.95
1401337--1401366	14	2.1	14	100	0	60	23	6	30	40	1.80
1404444--1404468	11	2.3	11	100	0	50	32	8	24	36	1.84
1405129--1405185	23	2.5	23	88	0	78	40	3	19	36	1.69
1405159--1405210	27	2.0	26	85	7	70	36	1	23	38	1.66
1405573--1405645	23	3.2	23	92	0	119	34	5	21	38	1.77
1406049--1406121	23	3.2	23	83	11	96	36	5	17	39	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1406462--1406504	21	2.1	20	83	12	52	39	11	11	37	1.78
1406514--1406563	23	2.2	23	92	0	82	34	6	22	38	1.78
1404707--1407764	919	3.3	925	91	5	4743	41	7	11	40	1.68
1406968--1407040	23	3.2	23	88	0	110	35	5	20	38	1.76
1407456--1407527	23	3.1	23	93	0	117	34	4	22	38	1.73
1406514--1407764	488	2.6	489	93	2	2154	40	7	11	41	1.68
1407820--1408219	180	2.2	181	88	0	577	42	14	16	26	1.86
1410448--1410510	21	3.0	21	92	0	99	41	11	30	17	1.84
1410544--1410609	33	2.0	33	90	0	105	28	0	48	22	1.51
1411796--1415348	4	905.8	4	94	5	6314	24	0	25	49	1.51
1415899--1415947	19	2.6	19	96	0	89	32	2	10	55	1.45
1416552--1417271	200	3.6	200	94	1	1230	35	14	18	30	1.91
1416169--1417271	378	2.8	386	90	4	1708	36	14	18	30	1.91
1418764--1418809	12	3.8	12	85	0	56	39	6	32	21	1.79
1418764--1418809	18	2.6	18	85	0	56	39	6	32	21	1.79
1420062--1420407	172	2.0	171	92	2	577	35	13	16	34	1.89
1423004--1423048	22	2.0	22	83	8	56	42	11	8	37	1.72
1423074--1423138	23	2.8	23	90	0	103	35	6	20	38	1.77
1423066--1423143	23	3.5	22	85	3	95	35	5	20	38	1.75
1423066--1423163	46	2.1	46	80	0	106	36	6	16	40	1.73
1423926--1423971	21	2.2	21	88	0	65	26	28	23	21	1.99
1424432--1424472	21	2.0	21	95	0	73	26	26	19	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1425182--1425225	23	1.9	23	95	0	79	31	27	25	15	1.96
1429816--1429844	14	2.1	14	93	6	51	44	0	3	51	1.18
1434424--1434475	4	13.0	4	91	0	86	48	1	0	50	1.12
1434424--1434475	6	8.7	6	95	0	86	48	1	0	50	1.12
1434544--1434800	36	7.2	36	74	17	184	44	4	6	44	1.49
1434544--1434778	71	3.3	69	79	11	223	45	4	6	43	1.50
1434810--1434843	3	11.3	3	100	0	68	32	0	0	67	0.91
1435936--1435985	18	2.7	19	84	9	68	16	8	6	70	1.32
1438001--1438047	19	2.4	20	85	7	69	10	12	8	68	1.40
1441396--1442672	165	7.7	165	83	5	1389	29	25	21	23	1.99
1441396--1442672	249	5.1	249	87	3	1711	29	25	21	23	1.99
1443307--1443582	37	7.4	38	72	13	141	44	4	6	44	1.49
1443278--1443509	36	6.3	38	75	13	166	43	3	5	46	1.45
1443400--1443424	12	2.1	12	100	0	50	44	8	8	40	1.63
1443321--1443598	109	2.5	106	78	13	305	43	4	6	45	1.49
1443377--1443598	72	3.0	72	75	11	211	41	4	7	46	1.53
1443312--1443587	36	7.5	36	72	15	154	43	4	6	45	1.49
1443610--1443637	3	9.3	3	100	0	56	32	0	0	67	0.91
1444732--1444781	18	2.7	19	84	9	68	16	8	6	70	1.32
1444891--1444962	28	2.5	29	75	6	67	13	6	2	76	1.10
1444916--1444966	21	2.5	20	78	15	59	15	5	1	76	1.07
1444891--1444966	35	2.1	36	83	7	93	14	6	2	76	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1450892--1450927	2	18.0	2	100	0	72	50	0	0	50	1.00
1452234--1452396	49	3.5	45	71	18	122	42	14	7	34	1.74
1454397--1454441	22	2.0	22	100	0	90	22	11	13	53	1.71
1454753--1454812	23	2.6	22	81	5	57	43	8	16	31	1.78
1454735--1454974	87	2.8	87	90	0	381	43	9	14	32	1.77
1454987--1455653	198	3.4	199	89	2	934	31	16	13	38	1.87
1455832--1455876	14	3.1	15	84	9	67	60	2	0	37	1.09
1455868--1455936	24	2.9	25	79	18	76	43	1	2	52	1.25
1456491--1456589	31	3.0	33	75	15	98	49	2	1	47	1.19
1456491--1456590	30	3.1	31	80	11	87	49	2	1	48	1.19
1456533--1456634	14	7.2	14	70	11	57	48	1	0	49	1.19
1456547--1456615	28	2.5	28	74	6	70	49	1	1	47	1.19
1456598--1456642	14	3.1	15	84	6	58	55	2	0	42	1.12
1456633--1456686	22	2.5	21	77	17	56	42	1	1	53	1.22
1456635--1456702	24	2.9	24	76	12	61	39	1	4	54	1.30
1456957--1457006	23	2.2	23	85	0	64	34	16	10	40	1.81
1457034--1457084	23	2.2	23	89	0	75	33	19	9	37	1.85
1456939--1457167	87	2.6	87	90	0	370	33	14	8	42	1.77
1457034--1457303	109	2.5	110	87	0	398	32	15	10	42	1.80
1457239--1457314	23	3.3	23	92	0	125	36	19	6	36	1.78
1458796--1458874	25	3.2	25	73	16	74	24	0	32	43	1.55
1458826--1458914	25	3.5	25	72	3	79	25	1	37	35	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1458799--1458917	51	2.3	51	89	0	175	26	0	34	38	1.62
1462526--1462654	49	2.7	49	89	3	181	37	3	14	43	1.64
1462577--1462653	24	3.2	23	68	17	57	38	3	18	38	1.69
1463174--1463294	42	2.9	42	94	0	206	23	20	32	23	1.98
1464708--1464770	23	2.7	25	78	9	71	49	1	0	49	1.10
1464762--1464813	24	2.1	25	82	10	63	55	3	0	40	1.18
1464716--1464787	37	2.0	35	83	8	90	55	1	0	43	1.08
1464725--1464801	37	2.1	35	83	7	91	51	2	0	45	1.14
1471510--1471538	2	14.5	2	100	0	58	51	0	0	48	1.00
1476034--1476112	26	3.1	24	71	16	70	40	2	1	55	1.21

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13