genome.fa.s8192.2.7.7.80.10.50.1000.8.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: VEPZ01008192.1 Hibiscus syriacus cultivar Beakdansim tig00110809_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1702141

Tables:   1   2   3   4   5   6   7   8   9   

This is table  8  of  9  ( 1079 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)
1279849--1279892	21	2.1	21	86	0	61	56	0	2	40	1.11
1279948--1279978	6	5.2	6	92	0	53	19	64	16	0	1.29
1285501--1285609	45	2.4	45	85	0	146	33	14	11	41	1.81
1285937--1285967	2	15.5	2	100	0	62	51	0	0	48	1.00
1286568--1286969	189	2.1	189	87	4	578	44	9	7	39	1.65
1287318--1287418	37	2.8	36	84	6	123	38	14	15	30	1.88
1287865--1287946	11	7.3	11	70	20	53	34	3	2	59	1.28
1288126--1288176	21	2.4	22	80	3	59	27	3	1	66	1.20
1291503--1291567	20	3.3	20	81	14	73	78	6	13	1	1.01
1293054--1293312	36	7.3	36	77	10	248	25	18	13	41	1.88
1293054--1293323	73	3.8	73	75	11	290	26	18	13	41	1.88
1293002--1293379	138	2.7	136	84	2	495	28	19	12	39	1.88
1293090--1293279	102	1.9	103	89	3	303	26	17	13	41	1.87
1293193--1293316	37	3.4	36	84	6	162	25	19	14	41	1.89
1293274--1293448	67	2.6	65	84	6	217	32	21	9	36	1.85
1293265--1293447	68	2.7	67	84	4	219	30	21	9	38	1.85
1294052--1294349	106	2.8	107	86	3	420	34	24	18	22	1.96
1294923--1295023	37	2.8	36	83	8	116	38	15	15	29	1.89
1295735--1295794	21	2.7	22	76	10	59	28	3	1	66	1.17
1299958--1300116	83	1.9	83	83	5	205	33	10	20	35	1.87
1301112--1301138	14	1.9	14	100	0	54	40	7	7	44	1.60
1308583--1308667	43	2.0	43	86	4	118	32	22	20	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1308668--1308784	44	2.7	43	84	5	146	34	20	22	23	1.97
1308779--1308895	43	2.7	43	85	0	153	25	25	17	30	1.97
1310466--1310505	19	2.1	19	95	0	71	55	0	17	27	1.43
1311116--1311191	22	3.2	24	78	12	86	47	1	9	42	1.44
1311219--1311247	14	2.1	14	100	0	58	41	6	6	44	1.58
1311158--1311309	38	4.0	37	85	10	193	43	5	7	42	1.58
1311158--1311309	76	2.0	75	93	1	259	43	5	7	42	1.58
1311270--1311324	24	2.5	20	80	13	56	45	7	3	43	1.49
1311330--1311460	19	7.5	18	70	23	86	45	4	6	44	1.49
1311375--1311401	2	13.5	2	100	0	54	51	0	0	48	1.00
1311655--1311750	43	2.2	43	90	3	149	38	26	28	7	1.83
1317456--1317506	10	5.1	10	82	0	66	56	15	13	13	1.67
1317456--1317506	20	2.5	20	87	0	75	56	15	13	13	1.67
1318485--1318542	23	2.5	23	88	0	89	37	25	18	17	1.93
1320096--1320153	20	2.7	20	86	10	71	27	22	18	31	1.97
1320141--1320278	64	2.2	63	82	12	158	24	23	18	33	1.97
1323558--1323607	23	2.2	23	96	0	91	28	26	28	18	1.98
1323558--1323618	23	2.7	23	86	0	77	29	24	26	19	1.99
1325159--1325196	20	1.9	20	94	0	67	26	23	18	31	1.97
1325208--1325365	64	2.5	64	78	11	180	25	22	17	34	1.96
1326208--1326258	14	4.0	13	78	19	54	60	9	11	17	1.57
1326205--1326255	24	2.1	24	92	0	84	60	11	9	17	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1327276--1327320	23	2.0	22	83	8	56	37	22	17	22	1.94
1327301--1327374	23	3.2	23	78	0	85	35	24	21	18	1.96
1327451--1327559	14	7.4	14	69	17	60	43	19	5	32	1.74
1327451--1327588	45	3.1	44	82	4	161	42	18	5	32	1.74
1328095--1328123	15	1.9	15	100	0	58	34	17	13	34	1.89
1329341--1329402	27	2.3	26	86	2	79	50	6	11	32	1.64
1329355--1329417	23	2.5	24	85	10	74	49	6	6	38	1.54
1330520--1330551	16	2.0	16	93	0	55	46	6	21	25	1.74
1332444--1332507	31	2.1	31	93	0	110	18	14	10	56	1.67
1346683--1346786	30	3.5	30	79	0	118	49	7	4	38	1.53
1347345--1347378	16	2.1	17	94	5	61	11	14	35	38	1.83
1347591--1347623	2	16.5	2	100	0	66	51	0	0	48	1.00
1348650--1348741	14	7.5	13	72	15	63	50	2	2	45	1.26
1348631--1348765	60	2.3	58	82	9	159	48	1	1	48	1.19
1348651--1348742	28	3.1	28	71	20	80	48	2	2	46	1.26
1348711--1348760	21	2.6	19	81	12	57	46	0	0	54	1.00
1348717--1348773	16	3.4	16	76	23	55	42	0	0	57	0.98
1348736--1348913	88	2.0	88	100	0	356	41	3	5	50	1.43
1349129--1349174	13	3.4	13	88	11	74	50	8	13	28	1.70
1349132--1349178	15	3.3	15	82	11	71	46	6	14	31	1.70
1350655--1350685	10	3.2	10	90	9	55	74	0	0	25	0.82
1350655--1350691	19	1.9	19	88	0	56	75	2	0	21	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1351742--1351792	16	3.2	16	75	8	50	64	1	3	29	1.22
1355902--1355951	19	2.7	20	76	17	54	50	6	0	44	1.26
1360522--1360555	18	1.9	18	88	5	52	64	0	0	35	0.94
1362057--1362127	2	35.5	2	100	0	142	49	0	0	50	1.00
1362503--1362532	9	3.4	9	90	9	53	86	0	0	13	0.57
1364923--1364980	30	2.0	29	82	3	71	34	8	22	34	1.85
1365211--1365273	23	2.7	23	87	0	90	15	28	26	28	1.96
1365587--1365627	2	20.5	2	100	0	82	48	0	0	51	1.00
1366154--1366236	27	3.1	27	94	0	139	33	26	10	28	1.90
1372996--1373044	21	2.3	21	92	0	80	34	22	14	28	1.93
1373877--1373902	6	4.3	6	100	0	52	80	0	0	19	0.71
1374039--1374110	29	2.5	30	80	11	87	41	12	0	45	1.42
1374711--1374766	3	18.7	3	85	14	80	32	0	0	67	0.91
1375701--1375726	2	13.0	2	100	0	52	50	0	0	50	1.00
1376915--1376945	16	1.9	16	93	0	53	41	0	6	51	1.27
1376943--1376984	22	2.0	21	86	13	59	23	4	0	71	1.05
1376966--1376995	14	2.1	15	93	6	53	20	0	3	76	0.92
1386550--1386592	21	2.0	21	86	0	59	16	25	27	30	1.97
1392631--1392675	23	2.0	23	81	0	54	26	24	26	22	2.00
1393293--1393330	20	1.9	20	88	0	58	10	31	34	23	1.89
1393357--1393399	21	2.0	21	86	0	59	16	25	27	30	1.97
1396151--1396265	60	1.9	60	85	0	158	34	13	18	33	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1401226--1401285	13	4.8	13	74	15	63	28	0	3	68	1.05
1401311--1401945	318	2.0	317	96	0	1173	37	15	17	29	1.91
1401907--1401940	13	2.7	13	90	4	52	70	0	0	29	0.87
1405460--1405708	124	2.0	122	91	8	407	36	7	19	36	1.80
1424684--1424844	42	3.7	45	80	9	158	37	8	22	32	1.83
1428312--1428377	32	2.1	32	85	5	89	62	15	1	21	1.41
1428307--1428396	32	2.8	32	76	8	83	63	12	4	20	1.45
1428866--1428925	30	2.0	30	83	6	77	21	20	41	16	1.90
1432114--1432152	20	2.0	20	90	5	62	69	10	0	20	1.17
1432075--1432385	159	2.0	151	89	10	477	45	7	8	38	1.63
1433413--1433479	2	34.0	2	96	3	127	50	0	0	49	1.00
1439474--1439514	20	2.0	20	100	0	82	14	31	0	53	1.41
1440748--1440785	2	19.5	2	89	5	60	50	0	0	50	1.00
1446117--1446269	76	2.0	76	100	0	306	36	22	7	33	1.83
1446133--1446253	39	3.2	39	63	25	103	38	23	5	32	1.79
1446332--1446418	36	2.4	36	100	0	174	31	28	12	27	1.93
1449905--1449951	19	2.5	19	86	6	60	19	48	6	25	1.72
1460563--1460610	21	2.3	19	77	22	51	58	2	4	35	1.29
1461069--1461117	25	2.0	25	83	0	62	36	16	6	40	1.73
1466948--1466981	2	17.0	2	100	0	68	50	0	0	50	1.00
1468718--1468763	18	2.6	18	89	6	67	36	4	6	52	1.47
1470367--1470590	117	1.9	117	83	5	292	47	8	14	29	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1470974--1471019	20	2.2	21	96	3	85	36	4	4	54	1.40
1476912--1476957	18	2.6	18	86	6	58	39	4	4	52	1.41
1479325--1479359	16	2.2	16	90	10	54	68	8	0	22	1.16
1480646--1480705	26	2.3	27	88	5	88	18	10	30	41	1.83
1500478--1500567	29	3.1	28	79	10	76	41	7	6	44	1.59
1507998--1508043	21	2.2	21	88	3	67	50	13	21	15	1.78
1508155--1508191	17	2.1	19	85	10	51	70	0	13	16	1.17
1508487--1508523	17	2.1	18	95	5	67	48	29	5	16	1.68
1515530--1515585	14	4.3	14	76	17	66	10	12	23	53	1.69
1515537--1515606	24	2.9	24	87	4	97	12	10	18	58	1.62

Tables:   1   2   3   4   5   6   7   8   9