genome.fa.s8105.2.7.7.80.10.50.1000.8.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: VEPZ01008105.1 Hibiscus syriacus cultivar Beakdansim tig00110637_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5962497

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   25   26   27   28   29   30   

This is table  8  of  30  ( 3521 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)
1328851--1328885	14	2.4	14	90	4	52	31	0	2	65	1.07
1337867--1337939	22	3.3	22	86	1	101	31	19	21	27	1.97
1338525--1338577	19	2.8	19	97	0	97	35	24	11	28	1.90
1356810--1356944	20	6.7	20	84	5	173	29	26	19	24	1.98
1357131--1357174	22	2.0	22	100	0	88	22	45	13	18	1.84
1357437--1357495	20	3.0	20	87	0	73	15	18	22	44	1.87
1357632--1357686	25	2.2	24	78	15	58	20	9	18	52	1.71
1358953--1359019	20	3.4	20	83	2	82	40	23	20	14	1.90
1358992--1359088	19	5.6	19	73	22	106	46	20	19	13	1.83
1359008--1359066	14	3.9	14	78	20	64	49	22	16	11	1.78
1358992--1359083	33	2.8	33	96	0	166	47	20	18	13	1.81
1359095--1359160	19	3.7	19	75	19	79	12	19	21	46	1.82
1359145--1359219	20	3.8	20	89	5	100	18	25	22	33	1.97
1359207--1359245	20	2.0	20	89	0	60	28	12	25	33	1.93
1359587--1359647	21	3.0	20	68	15	52	24	40	11	22	1.87
1359584--1359674	41	2.2	42	84	2	121	23	40	14	21	1.90
1361081--1361119	14	2.8	14	84	0	51	35	0	17	46	1.49
1361259--1361342	19	4.4	19	95	0	150	48	15	19	16	1.81
1361387--1361455	20	3.5	20	93	0	111	14	26	24	34	1.94
1362001--1362154	20	7.7	20	81	7	159	24	18	25	30	1.98
1361981--1362176	40	4.8	41	78	8	134	22	19	25	32	1.97
1362185--1362237	21	2.5	22	81	6	74	33	18	26	20	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1367643--1367696	22	2.5	23	76	11	60	33	1	12	51	1.51
1368470--1368620	39	3.9	39	91	0	239	15	37	17	29	1.91
1369539--1369579	17	2.3	18	91	4	66	70	4	17	7	1.28
1371017--1371054	17	2.3	17	83	16	53	55	5	26	13	1.59
1377430--1377468	20	1.9	19	85	10	51	51	12	5	30	1.62
1378420--1378468	21	2.4	21	86	6	66	28	16	28	26	1.97
1390354--1390393	18	2.2	19	95	4	73	35	7	22	35	1.82
1394810--1394872	29	2.1	30	85	8	85	52	3	15	28	1.58
1395287--1395327	17	2.3	18	87	4	57	34	7	9	48	1.64
1397152--1397184	16	2.0	17	88	5	50	24	3	6	66	1.28
1405488--1405527	20	2.0	20	95	0	71	25	7	25	42	1.80
1407476--1407515	20	2.0	20	100	0	80	20	25	0	55	1.44
1414444--1414483	18	2.2	19	90	4	64	47	2	0	50	1.14
1426629--1426663	18	1.9	18	94	0	61	14	37	22	25	1.92
1428424--1428483	29	2.0	30	90	3	95	35	6	23	35	1.81
1435494--1435598	25	4.1	26	76	11	69	44	4	0	49	1.29
1435524--1435572	22	2.1	24	88	7	75	42	4	0	53	1.20
1435614--1435649	2	18.0	2	100	0	72	50	0	0	50	1.00
1435785--1435852	31	2.2	31	97	0	127	51	10	7	30	1.63
1435971--1436061	31	2.8	32	90	3	139	59	9	14	16	1.61
1448822--1448849	12	2.3	12	100	0	56	21	0	0	78	0.75
1450331--1450402	17	4.2	17	76	3	72	40	5	13	40	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1452612--1452654	21	2.0	22	81	4	52	62	2	2	32	1.20
1453070--1453209	21	6.8	21	79	5	151	32	20	22	24	1.98
1453071--1453209	41	3.4	41	76	16	144	33	20	21	24	1.97
1453091--1453216	62	2.0	62	98	0	243	33	20	22	23	1.97
1453113--1453301	62	3.0	63	81	8	174	31	20	21	26	1.98
1453199--1453322	21	5.9	21	87	3	169	27	21	22	28	1.99
1453412--1453456	6	7.5	6	87	0	63	35	44	15	4	1.67
1453412--1453456	18	2.5	18	96	0	81	35	44	15	4	1.67
1453571--1453629	21	2.8	21	80	14	77	35	22	22	20	1.96
1453593--1453648	21	2.8	20	78	10	69	35	19	21	23	1.96
1454453--1454554	4	24.0	4	74	11	78	28	5	2	62	1.33
1454478--1454554	18	4.5	17	72	15	61	29	5	2	62	1.30
1454477--1454554	34	2.3	34	88	0	120	29	5	2	62	1.30
1456277--1456313	13	2.6	14	87	12	58	43	8	5	43	1.57
1458813--1458865	27	2.0	27	84	0	70	32	20	13	33	1.91
1458521--1459242	358	2.0	358	98	0	1381	33	23	18	23	1.97
1459171--1459223	27	2.0	27	84	0	70	32	20	13	33	1.91
1459625--1459686	28	2.3	27	85	2	88	27	11	4	56	1.54
1461327--1461374	22	2.1	22	88	3	69	16	14	8	60	1.57
1461817--1461850	2	17.0	2	100	0	68	50	0	0	50	1.00
1462390--1462422	17	1.9	17	93	0	57	27	6	3	63	1.32
1463330--1463384	18	2.9	19	89	5	85	40	10	25	23	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1473172--1473281	42	2.7	40	81	7	123	37	19	16	27	1.93
1473172--1473330	40	3.9	41	80	4	124	33	20	15	30	1.94
1473221--1473330	40	2.7	41	82	5	132	30	20	15	32	1.94
1473967--1474034	34	2.0	34	85	0	91	33	20	17	27	1.95
1475329--1475390	30	2.1	30	84	6	81	30	8	8	53	1.59
1475480--1475591	59	1.9	59	87	7	165	33	10	11	44	1.75
1475565--1475606	19	2.2	19	100	0	84	33	4	9	52	1.55
1476709--1476768	25	2.5	24	91	5	102	56	1	6	35	1.35
1479977--1480129	63	2.4	64	76	11	163	35	20	18	26	1.95
1480506--1480615	29	3.8	29	88	7	170	46	16	20	16	1.84
1483585--1484169	101	5.6	99	71	20	320	53	11	4	31	1.56
1483585--1484279	117	6.5	105	72	17	413	53	11	3	31	1.54
1484164--1484193	12	2.6	12	94	5	53	63	10	0	26	1.26
1483633--1484303	330	2.0	327	86	5	944	54	11	3	30	1.54
1484662--1484757	38	2.6	38	83	6	126	26	17	16	39	1.91
1495792--1495820	7	4.1	7	100	0	58	72	0	0	27	0.85
1499166--1499216	21	2.4	21	96	0	93	58	17	5	17	1.57
1500165--1500213	23	2.1	23	85	7	64	57	14	2	26	1.48
1503540--1503686	60	2.4	59	80	6	154	34	14	17	33	1.90
1505192--1505245	20	2.6	21	76	2	65	29	16	7	46	1.74
1505265--1505327	31	2.0	31	100	0	126	25	3	22	49	1.65
1506625--1506652	4	7.0	4	100	0	56	25	25	25	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1509221--1509276	21	2.6	22	91	8	89	42	12	19	25	1.86
1519143--1519170	13	2.2	13	100	0	56	21	25	21	32	1.98
1521718--1521763	23	2.0	22	84	16	58	10	10	0	78	0.97
1521713--1521765	17	3.1	17	83	2	52	11	11	0	77	1.00
1521728--1521772	17	2.8	17	90	9	69	8	11	0	80	0.92
1530846--1530936	8	11.2	8	78	10	60	4	16	3	75	1.09
1535851--1536082	119	2.0	118	82	4	288	23	21	14	40	1.90
1536295--1536384	44	2.0	44	82	4	110	31	12	22	34	1.91
1535960--1536702	214	3.5	212	84	5	862	27	20	17	33	1.96
1539215--1539275	10	6.7	9	82	16	63	9	4	1	83	0.86
1539204--1539284	20	4.3	18	78	21	78	11	4	1	82	0.87
1539203--1539291	29	3.1	28	82	10	108	11	5	1	82	0.89
1539213--1539291	8	8.7	9	77	22	67	11	6	1	81	0.93
1539197--1539291	19	4.9	19	80	11	104	12	6	1	80	0.96
1541253--1541331	21	3.8	21	100	0	158	22	20	8	48	1.77
1546786--1546842	15	3.7	15	81	9	60	8	14	1	75	1.11
1546797--1546867	17	4.3	16	84	10	90	7	16	1	74	1.10
1546799--1546875	32	2.4	32	87	8	104	6	19	1	72	1.13
1546816--1546875	15	3.9	15	77	16	68	6	21	0	71	1.08
1546823--1546874	25	2.1	24	85	3	68	5	21	0	73	1.04
1557079--1557310	119	2.0	117	83	6	290	25	20	14	39	1.91
1557614--1557677	20	3.2	20	68	12	60	23	25	12	39	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1557155--1557718	207	2.7	208	81	6	670	26	20	17	35	1.95
1557949--1558166	102	2.1	102	88	0	328	34	10	21	33	1.87
1560248--1560532	7	39.4	7	86	9	281	3	18	0	78	0.88
1560327--1560455	1	129.0	1	70	0	78	1	13	0	84	0.70
1560814--1560855	20	2.0	21	86	9	59	33	2	35	28	1.70
1565377--1565404	9	3.1	9	100	0	56	42	0	0	57	0.99
1565744--1565774	16	1.9	16	100	0	62	45	19	12	22	1.84
1567977--1568003	13	2.1	13	100	0	54	14	22	7	55	1.64
1570141--1570224	29	2.9	29	85	0	114	35	7	9	47	1.64
1573624--1573709	25	3.5	25	90	4	122	39	0	1	59	1.05

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   25   26   27   28   29   30