genome.fa.s8425.2.7.7.80.10.50.1000.7.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: VEPZ01008425.1 Hibiscus syriacus cultivar Beakdansim tig00111208_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2340112

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

This is table  7  of  12  ( 1340 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)
1322351--1322409	20	3.0	20	87	0	73	42	22	18	16	1.89
1322654--1322697	22	2.0	22	95	0	79	18	15	45	20	1.85
1322865--1323000	20	6.7	21	80	8	90	24	16	23	36	1.94
1322926--1322999	20	3.7	20	94	0	130	27	16	24	32	1.96
1322865--1323002	41	3.4	42	80	8	169	24	15	23	36	1.94
1323073--1323106	12	2.8	12	100	0	68	41	26	26	5	1.78
1323846--1324022	59	3.0	59	80	9	202	33	20	5	41	1.74
1329437--1329548	59	1.9	59	84	0	152	31	21	16	31	1.95
1334576--1334609	17	2.1	17	94	5	61	58	5	11	23	1.55
1334841--1334875	17	2.1	17	100	0	70	48	11	5	34	1.63
1337624--1337651	13	2.2	13	100	0	56	14	21	21	42	1.88
1338319--1338442	56	2.3	53	79	9	133	15	18	20	45	1.86
1338319--1338443	28	4.6	28	79	10	111	16	18	20	44	1.86
1339716--1339786	20	3.5	20	96	0	133	26	14	16	42	1.87
1341434--1341491	29	2.0	30	82	3	73	44	3	12	39	1.58
1343624--1343679	17	3.2	17	80	5	58	57	1	3	37	1.27
1344025--1344086	22	2.9	20	77	13	61	46	3	0	50	1.17
1345243--1345285	17	2.5	17	92	0	77	16	46	23	13	1.83
1354833--1354858	8	3.2	8	100	0	52	38	0	11	50	1.39
1359552--1359804	51	4.9	50	78	7	193	33	18	24	22	1.97
1359780--1360008	53	4.2	53	85	3	305	28	14	28	28	1.96
1359780--1360008	108	2.1	108	90	0	359	28	14	28	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1360689--1360731	17	2.5	17	92	0	77	16	46	23	13	1.83
1364476--1364662	30	5.9	29	67	16	79	21	11	36	29	1.89
1364482--1365550	66	16.3	66	75	12	630	19	14	37	29	1.91
1364575--1365721	36	33.5	35	71	14	679	19	14	37	29	1.91
1364572--1365589	102	10.3	102	90	5	847	18	14	37	28	1.91
1365010--1365049	18	2.2	18	90	0	62	20	7	57	15	1.61
1364872--1365187	156	2.0	156	95	0	569	19	13	39	26	1.90
1364974--1365084	54	2.1	54	94	0	195	19	12	43	24	1.86
1364770--1365286	258	2.0	255	96	1	944	19	14	38	28	1.90
1365035--1365685	99	6.5	99	92	2	1049	19	14	36	29	1.91
1364572--1365687	66	16.9	66	69	18	514	19	14	37	29	1.91
1367399--1367435	19	1.9	19	88	0	56	75	2	0	21	0.92
1368757--1368822	25	2.6	25	95	2	114	39	7	3	50	1.46
1370290--1370323	16	2.1	16	88	0	50	58	2	0	38	1.13
1370386--1370443	2	30.0	2	93	6	102	50	0	0	50	1.00
1371256--1371289	6	5.7	6	96	0	59	20	0	67	11	1.21
1371280--1371537	36	7.7	34	69	18	157	23	11	36	28	1.89
1371187--1371361	90	1.9	89	87	4	253	22	10	42	25	1.85
1371315--1371690	30	11.8	31	66	17	146	22	11	37	28	1.89
1371272--1371851	60	8.9	71	82	10	401	21	11	37	28	1.89
1371355--1371851	65	7.9	61	76	12	422	21	12	37	29	1.89
1371277--1371848	125	4.5	126	86	8	700	21	11	37	29	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1371668--1371878	36	6.4	36	68	19	163	20	12	38	28	1.89
1371749--1371845	30	3.2	30	61	16	74	20	15	38	25	1.92
1372742--1372802	27	2.3	27	91	0	95	65	1	4	27	1.22
1373309--1373351	18	2.4	18	100	0	86	41	6	6	44	1.58
1374748--1374791	22	2.0	22	91	8	72	27	11	22	38	1.88
1375390--1375458	9	8.5	8	82	16	72	0	11	4	84	0.77
1375390--1375457	25	2.8	24	84	10	93	0	11	4	83	0.78
1375388--1375458	32	2.2	32	82	7	92	0	14	4	81	0.83
1375412--1375443	14	2.3	14	100	0	64	0	6	6	87	0.67
1375390--1375463	16	4.4	17	75	13	73	1	12	4	82	0.87
1375396--1375463	8	7.9	9	72	11	54	1	11	4	82	0.88
1375379--1375457	32	2.5	31	81	10	88	0	13	5	81	0.86
1376630--1376667	15	2.5	15	91	0	58	57	13	18	10	1.63
1378047--1378074	5	5.6	5	100	0	56	82	0	0	17	0.68
1379757--1379799	18	2.5	17	81	7	52	65	2	4	27	1.25
1380655--1381751	551	2.0	544	93	3	1855	41	8	12	37	1.73
1382068--1382098	14	2.2	14	94	0	53	9	12	19	58	1.62
1382063--1382118	24	2.3	24	90	6	87	12	8	17	60	1.57
1382293--1382373	23	3.5	23	80	9	92	11	13	18	56	1.66
1382313--1382396	24	3.5	24	76	9	91	10	15	19	54	1.69
1382289--1382394	47	2.3	47	86	0	149	11	14	17	56	1.66
1383145--1383188	23	2.0	21	86	8	61	13	18	18	50	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1383659--1383732	32	2.3	32	93	2	123	41	21	12	24	1.87
1383888--1383946	29	2.0	29	96	0	109	27	23	18	30	1.98
1387439--1387512	32	2.3	32	90	2	114	40	21	13	24	1.89
1387667--1387725	29	2.0	29	96	0	109	27	23	18	30	1.98
1391210--1391283	32	2.3	32	90	2	114	40	21	13	24	1.89
1391437--1391495	29	2.0	29	96	0	109	27	23	18	30	1.98
1394509--1394576	27	2.5	27	100	0	136	48	0	0	51	1.00
1396727--1396762	2	18.0	2	100	0	72	50	0	0	50	1.00
1397785--1397818	16	2.1	16	88	0	50	58	2	0	38	1.13
1398634--1398799	87	1.9	86	85	4	226	24	10	39	25	1.88
1398762--1399139	30	11.8	31	67	16	164	22	11	37	28	1.89
1398721--1399301	66	8.9	65	82	11	667	21	11	37	28	1.89
1398724--1399328	36	18.4	35	66	20	144	21	11	37	28	1.89
1398721--1399298	126	4.5	128	87	6	755	21	11	37	28	1.89
1399199--1399295	30	3.2	30	61	16	74	20	15	38	25	1.92
1400210--1400251	14	3.1	14	72	6	50	71	2	2	23	1.10
1400187--1400253	27	2.4	28	85	5	91	65	1	4	28	1.21
1400887--1400950	27	2.4	27	82	10	94	39	21	9	29	1.85
1403039--1403096	23	2.5	23	77	2	62	15	24	8	51	1.71
1406076--1406147	27	2.7	27	95	0	126	37	8	25	29	1.85
1411894--1411950	20	2.8	20	86	0	78	26	29	21	22	1.99
1411903--1411958	20	2.8	20	76	10	60	30	25	23	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1414845--1414908	23	2.8	23	85	0	92	35	12	20	31	1.90
1415873--1415909	19	1.9	19	94	0	65	29	32	18	18	1.96
1418067--1418103	14	2.6	14	91	4	56	5	21	21	51	1.68
1418305--1418351	24	2.0	24	95	0	85	34	17	21	27	1.95
1418309--1418360	24	2.2	24	85	0	68	36	19	19	25	1.95
1419164--1419232	20	3.4	20	76	11	77	23	17	28	30	1.97
1419248--1419294	21	2.2	21	80	0	58	34	19	21	25	1.96
1419207--1419322	41	2.8	41	74	3	99	31	18	21	27	1.97
1420245--1420288	23	2.0	22	86	4	61	47	0	6	45	1.29
1422181--1422231	12	4.2	12	80	16	52	78	0	7	13	0.96
1422172--1422239	25	2.8	23	80	8	64	76	0	7	16	1.00
1422246--1422298	2	28.0	2	88	11	85	52	0	0	47	1.00
1422547--1422586	2	20.0	2	94	0	71	52	0	0	47	1.00
1423865--1424917	106	10.1	106	86	7	1331	22	18	24	33	1.97
1423861--1426044	212	10.5	212	88	5	3104	22	18	24	34	1.96
1423860--1426044	318	7.0	318	88	5	3137	22	18	24	34	1.96
1424828--1425207	89	4.0	89	85	10	431	21	19	25	33	1.97
1425018--1426044	106	9.7	106	92	0	1640	23	17	24	34	1.96
1426850--1426948	22	4.5	22	96	0	171	20	14	27	38	1.91
1427343--1427681	172	2.0	173	91	4	549	26	17	19	36	1.94
1427723--1427798	7	10.0	7	71	20	55	2	14	5	77	1.05
1427715--1427760	23	2.0	24	86	4	67	2	13	6	78	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1427716--1427797	38	2.1	37	82	10	94	2	14	6	76	1.07
1427771--1427804	16	2.1	17	89	10	54	2	14	5	76	1.09
1431131--1431167	19	1.9	19	89	10	58	67	0	24	8	1.17
1432262--1432316	4	13.2	4	85	11	67	74	0	3	21	0.97
1432230--1432324	29	3.2	29	79	10	104	72	0	6	21	1.06
1432322--1432350	2	14.5	2	100	0	58	51	0	0	48	1.00
1432617--1432662	2	24.0	2	86	8	69	54	0	0	45	0.99
1432682--1432728	23	2.0	23	88	8	69	55	0	6	38	1.26
1432634--1432772	60	2.3	60	85	5	172	57	3	5	33	1.38
1433193--1433294	37	2.8	37	83	0	132	35	12	8	43	1.74

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