genome.fa.s8737.2.7.7.80.10.50.1000.7.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: VEPZ01008737.1 Hibiscus syriacus cultivar Beakdansim tig00111812_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2791265

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   

This is table  7  of  14  ( 1580 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)
1287839--1287893	26	2.2	25	86	3	74	32	16	5	45	1.70
1289056--1289426	91	4.1	92	81	7	443	39	11	22	27	1.88
1296022--1296488	93	5.1	93	96	2	870	22	12	19	46	1.83
1296022--1296488	184	2.5	186	96	2	861	22	12	19	46	1.83
1296535--1296666	19	7.3	19	70	23	97	47	28	15	7	1.73
1296552--1296666	19	6.5	19	73	22	115	48	28	16	6	1.70
1296572--1296666	35	2.8	33	89	10	149	48	28	16	6	1.71
1296662--1296780	19	6.8	19	76	18	105	10	20	21	47	1.81
1296684--1296740	14	3.7	14	77	20	60	10	21	22	45	1.82
1296667--1296759	33	2.8	33	93	0	159	11	20	20	47	1.81
1296731--1296796	19	3.4	19	87	6	89	10	16	27	45	1.80
1298718--1298749	14	2.3	14	94	0	55	34	0	21	43	1.53
1298861--1298950	18	5.2	18	79	17	111	15	22	17	44	1.86
1298843--1298971	50	2.6	48	91	4	197	15	23	17	43	1.87
1301484--1301530	24	2.0	24	87	8	69	38	21	14	25	1.92
1302206--1302396	20	9.6	20	86	4	215	21	18	24	35	1.96
1302388--1302435	21	2.2	22	85	3	62	25	16	20	37	1.93
1305269--1305379	58	1.9	58	83	7	145	36	13	13	36	1.84
1312204--1312286	26	3.3	27	79	16	97	44	0	1	54	1.08
1312186--1312344	64	2.5	64	97	1	300	42	0	1	55	1.10
1312239--1312323	38	2.2	37	85	12	109	43	0	1	55	1.07
1312339--1312400	19	3.3	19	78	15	58	37	1	0	61	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1313015--1313074	31	1.9	31	93	0	102	45	8	6	40	1.61
1313973--1314384	36	11.6	36	78	10	343	45	3	6	44	1.48
1313971--1314483	72	7.3	71	78	11	461	45	3	6	44	1.47
1314271--1314329	30	2.1	27	87	9	82	45	5	6	42	1.52
1314294--1314404	36	3.0	35	81	5	123	45	5	8	40	1.56
1314160--1314402	135	1.8	132	83	6	319	46	3	6	43	1.47
1314490--1314567	5	15.2	5	78	15	79	21	1	1	75	0.94
1314492--1314568	6	13.7	6	79	6	65	20	1	1	76	0.93
1314490--1314568	17	4.7	17	80	11	92	21	1	1	75	0.94
1314492--1314568	26	3.2	22	78	21	75	20	1	1	76	0.93
1314490--1314546	8	7.2	8	71	25	50	22	0	1	75	0.90
1314492--1314567	21	3.7	21	75	16	86	21	1	1	76	0.94
1316083--1316122	4	10.0	4	84	10	55	22	2	0	75	0.93
1316219--1316248	13	2.3	13	94	0	51	30	0	0	70	0.88
1319829--1319973	67	2.2	67	93	0	245	32	22	15	29	1.95
1319896--1320169	110	2.5	110	90	0	431	33	24	18	23	1.97
1320269--1320632	84	4.3	84	86	4	475	31	25	19	23	1.98
1320269--1320632	169	2.2	170	87	5	515	31	25	19	23	1.98
1321185--1321516	71	4.6	71	90	3	477	46	3	5	45	1.41
1321185--1321620	142	3.0	141	82	9	458	46	3	5	44	1.44
1321185--1321620	36	12.2	35	77	11	379	46	3	5	44	1.44
1321586--1321637	17	3.4	17	77	20	60	46	3	7	42	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1321696--1321745	8	6.2	8	77	13	50	24	2	0	74	0.93
1321703--1321766	25	2.5	26	85	7	87	21	3	0	75	0.95
1321706--1321773	23	2.9	23	79	12	75	19	5	0	75	1.01
1322858--1322927	34	2.1	34	89	10	108	8	11	12	67	1.43
1323023--1323052	13	2.3	13	94	0	51	16	0	3	80	0.85
1323365--1323407	7	6.4	7	84	10	63	27	0	0	72	0.85
1323365--1323407	20	2.2	20	91	8	70	27	0	0	72	0.85
1323366--1323407	13	3.2	13	93	0	66	28	0	0	71	0.86
1323963--1324021	30	2.0	30	83	3	75	45	13	3	37	1.60
1327860--1327884	4	6.2	4	100	0	50	0	24	0	76	0.80
1329963--1329992	14	2.1	14	100	0	60	23	13	56	6	1.60
1329987--1330012	10	2.6	10	100	0	52	11	26	61	0	1.30
1332940--1332969	12	2.6	12	94	5	53	43	0	0	56	0.99
1332940--1333014	23	3.2	24	72	18	59	50	0	1	48	1.09
1332904--1333158	120	2.2	117	82	5	327	41	3	3	51	1.35
1337476--1337521	24	1.9	24	90	0	74	19	13	30	36	1.90
1341164--1341232	29	2.2	30	80	15	77	36	4	18	40	1.71
1341173--1341232	29	2.0	31	87	6	88	35	5	18	41	1.72
1343272--1343330	29	2.0	31	90	6	95	33	5	18	42	1.72
1343410--1343508	21	4.8	20	84	10	128	21	37	20	21	1.95
1343548--1343604	21	2.8	21	89	2	89	24	19	28	28	1.98
1343529--1343622	20	4.7	20	78	10	84	21	23	25	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1344979--1345056	39	2.0	39	100	0	156	20	15	28	35	1.93
1347764--1347911	72	2.1	70	86	5	208	35	23	12	28	1.91
1353376--1353417	16	2.5	17	85	14	61	59	0	0	40	0.97
1353374--1353432	17	3.7	17	70	29	58	59	0	0	40	0.97
1357833--1357868	14	2.6	14	90	0	54	61	2	8	27	1.39
1357885--1357944	30	2.0	31	80	9	70	65	6	6	21	1.40
1359506--1359913	163	2.5	163	87	3	563	26	20	17	35	1.94
1359794--1360148	118	3.0	116	84	5	471	26	20	15	36	1.93
1360350--1360611	101	2.6	101	87	1	373	39	13	17	29	1.88
1368592--1368629	18	2.2	18	86	9	53	52	21	5	21	1.66
1377249--1377291	18	2.5	17	85	7	61	67	2	4	25	1.22
1377664--1377735	35	2.1	35	100	0	144	27	20	11	40	1.87
1378219--1378975	106	7.4	106	83	7	902	24	19	21	34	1.96
1378356--1378951	305	2.0	294	87	4	843	24	19	20	35	1.96
1378462--1378975	201	2.6	199	88	2	748	24	19	21	35	1.96
1378574--1378969	94	4.1	95	81	10	478	23	18	21	36	1.95
1387561--1387639	40	2.0	40	85	9	110	56	7	3	31	1.45
1388000--1388116	49	2.3	52	81	11	129	58	2	4	35	1.32
1388128--1388170	18	2.5	17	81	7	52	69	2	2	25	1.12
1388045--1388158	57	1.9	56	81	13	131	59	3	2	34	1.28
1388130--1388168	14	2.8	13	88	11	51	71	2	2	23	1.10
1388545--1388615	34	2.1	35	91	2	117	30	19	8	40	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1397605--1397637	2	16.5	2	100	0	66	51	0	0	48	1.00
1398942--1399440	73	6.8	71	83	10	496	45	7	4	43	1.51
1398977--1399443	37	12.7	36	84	8	552	44	7	4	44	1.51
1398977--1399443	110	4.2	110	86	5	576	44	7	4	44	1.51
1400020--1400698	84	8.2	81	77	7	561	25	18	23	33	1.97
1400021--1400692	167	4.1	164	79	5	662	25	18	23	33	1.97
1400446--1400589	75	1.9	75	92	0	243	20	15	25	37	1.93
1400022--1400714	251	2.8	247	84	3	889	25	18	23	33	1.96
1400859--1401132	123	2.2	122	91	4	446	26	17	24	31	1.97
1402656--1402907	95	2.6	95	90	3	380	30	18	19	32	1.95
1405539--1405578	18	2.2	18	86	13	55	75	0	5	20	0.99
1405551--1405582	15	2.1	16	94	5	57	78	0	0	21	0.76
1406747--1406788	18	2.3	18	84	8	50	78	0	2	19	0.86
1406758--1406809	18	2.8	18	85	8	61	71	0	1	26	0.97
1406741--1406811	28	2.6	26	77	18	74	73	0	1	25	0.92
1406749--1406825	23	3.5	22	71	21	63	70	0	2	27	1.01
1406903--1406932	2	15.0	2	100	0	60	50	0	0	50	1.00
1406914--1407338	37	11.4	36	83	8	487	44	6	4	45	1.49
1406916--1407295	147	2.6	145	84	7	500	44	6	4	45	1.47
1406914--1407294	73	5.2	71	85	7	478	44	6	4	45	1.47
1407324--1407359	18	1.9	19	88	5	56	55	0	5	38	1.23
1419211--1419264	18	3.0	17	76	10	54	57	12	11	18	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1421732--1421789	17	3.3	17	90	9	82	55	15	18	10	1.68
1423219--1423261	20	2.2	19	84	12	52	32	9	11	46	1.72
1423609--1423659	21	2.4	21	96	0	93	33	43	3	19	1.70
1427978--1428123	75	1.9	75	88	2	222	21	23	14	41	1.89
1428189--1428256	33	2.1	33	91	0	109	44	5	26	23	1.76
1432938--1433023	37	2.3	37	80	8	93	50	2	2	45	1.27
1433444--1433488	23	1.9	24	81	4	56	53	8	6	31	1.58
1434055--1434097	16	2.6	17	82	17	56	37	2	0	60	1.10
1434064--1434105	20	2.0	21	86	4	59	35	2	0	61	1.09
1434978--1435024	22	2.1	22	100	0	94	29	17	4	48	1.65

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14