genome.fa.s7800.2.7.7.80.10.50.1000.7.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: VEPZ01007800.1 Hibiscus syriacus cultivar Beakdansim tig00110114_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4652821

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  7  of  23  ( 2671 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)
1313308--1313391	20	4.1	20	76	13	71	1	11	7	79	0.97
1313306--1313380	24	3.1	23	81	11	62	1	10	6	81	0.93
1313333--1313391	29	2.0	29	84	12	77	0	11	6	81	0.87
1317846--1317919	18	4.0	18	74	10	51	75	0	9	14	1.03
1317875--1317915	15	2.6	16	81	14	50	78	0	7	14	0.96
1317936--1317960	2	12.5	2	100	0	50	52	0	0	48	1.00
1318785--1318888	36	2.8	37	83	2	129	34	11	10	43	1.76
1321783--1321808	2	13.0	2	100	0	52	50	0	50	0	1.00
1329195--1329286	33	2.8	33	100	0	184	21	15	25	38	1.92
1333999--1334066	2	34.0	2	100	0	136	50	0	0	50	1.00
1335341--1335392	9	5.9	8	82	17	59	21	51	23	3	1.63
1335341--1335392	4	11.8	4	84	15	59	21	51	23	3	1.63
1335338--1335392	13	4.1	13	90	4	83	21	50	23	3	1.64
1342498--1342569	19	3.7	19	85	5	90	18	23	27	30	1.97
1342499--1342569	10	7.3	9	77	14	61	16	23	28	30	1.97
1342566--1342597	9	3.4	9	95	4	55	21	56	21	0	1.43
1342566--1342597	5	6.8	5	86	13	50	21	56	21	0	1.43
1346885--1346931	13	3.8	12	76	13	51	10	10	0	78	0.96
1350470--1350507	19	2.0	19	100	0	76	36	10	21	31	1.87
1354050--1354094	19	2.4	19	96	0	81	55	4	17	22	1.60
1356334--1356362	15	1.9	15	100	0	58	65	0	0	34	0.93
1356439--1356602	29	5.6	29	83	4	143	53	13	1	32	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1357529--1357652	63	2.0	63	80	6	144	28	29	26	16	1.97
1360454--1360504	17	2.9	18	82	5	77	15	23	45	15	1.85
1365598--1365657	19	3.0	20	72	13	52	40	5	1	53	1.33
1365689--1365739	19	2.7	19	78	3	59	39	1	0	58	1.09
1365786--1365830	18	2.5	19	85	7	58	33	2	2	62	1.20
1367863--1367899	16	2.2	17	86	13	51	56	0	2	40	1.13
1369798--1369831	17	1.9	17	88	5	50	55	0	5	38	1.24
1370265--1370316	18	2.9	18	94	0	86	34	1	13	50	1.53
1378320--1378387	31	2.3	28	80	14	75	61	0	11	26	1.30
1380142--1380174	17	1.9	17	93	0	57	51	9	24	15	1.72
1381687--1381715	11	2.7	11	94	5	51	17	10	27	44	1.81
1381761--1381797	17	2.2	17	100	0	74	18	48	21	10	1.78
1381787--1381817	7	4.6	7	92	8	55	16	32	29	22	1.95
1381787--1381817	13	2.3	14	94	5	55	16	32	29	22	1.95
1388900--1388928	11	2.7	11	94	5	51	17	20	27	34	1.95
1396052--1396085	17	1.9	18	94	5	61	58	2	8	29	1.43
1398633--1398658	2	13.0	2	100	0	52	50	0	0	50	1.00
1412421--1412446	9	2.9	9	100	0	52	57	30	0	11	1.34
1417050--1417095	19	2.4	19	81	0	56	65	0	6	28	1.17
1417199--1417246	22	2.2	22	84	0	60	37	2	2	58	1.22
1419311--1419515	74	2.7	75	87	4	254	57	12	1	28	1.44
1425211--1425261	24	2.1	24	96	0	93	21	15	23	39	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1425215--1425269	24	2.3	24	90	0	83	21	14	21	41	1.89
1431923--1431991	20	3.7	20	70	23	69	68	5	4	21	1.29
1436942--1437042	31	3.2	31	78	17	102	32	17	17	31	1.94
1437269--1437308	17	2.4	16	87	4	53	47	22	2	27	1.64
1437601--1437658	20	2.7	20	81	10	62	27	20	18	32	1.97
1437646--1437800	64	2.4	64	82	6	188	23	23	20	32	1.97
1441115--1441208	31	3.1	31	81	1	109	30	23	19	26	1.98
1441115--1441232	31	3.8	31	79	10	100	32	21	18	27	1.97
1441152--1441252	31	3.2	31	76	17	93	33	16	16	32	1.92
1441124--1441252	62	2.1	61	81	9	154	32	19	18	29	1.96
1441929--1442002	31	2.4	31	82	6	96	33	33	20	12	1.89
1443019--1443179	28	5.8	28	94	0	277	45	17	2	34	1.62
1445304--1445355	25	2.1	25	100	0	104	32	28	15	23	1.95
1446228--1446301	31	2.4	31	84	6	105	35	33	18	12	1.88
1447316--1447505	28	6.8	28	90	3	258	45	16	2	36	1.59
1447316--1447505	57	3.4	56	88	5	267	45	16	2	36	1.59
1447381--1447424	12	3.0	16	68	25	51	40	18	0	40	1.50
1448362--1448401	17	2.4	16	87	4	53	47	22	2	27	1.64
1448694--1448731	20	1.9	20	88	0	58	26	21	18	34	1.96
1448738--1448881	64	2.2	64	86	4	202	26	21	18	34	1.96
1451201--1451248	16	2.9	16	80	20	55	72	4	0	22	1.01
1451935--1452049	25	4.6	24	66	17	72	58	14	0	26	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1451849--1452061	76	2.8	76	91	2	313	57	13	0	28	1.42
1453723--1453748	2	13.0	2	100	0	52	50	0	0	50	1.00
1469947--1470034	41	2.1	41	89	0	131	32	17	12	37	1.87
1469947--1470109	41	4.0	41	81	3	125	31	19	14	34	1.92
1472947--1473005	21	2.8	21	89	0	91	22	6	18	52	1.68
1473211--1473294	44	1.9	44	85	4	116	36	15	13	34	1.86
1476904--1477062	28	5.5	28	70	22	98	49	1	0	48	1.13
1476921--1477073	28	5.2	30	73	20	112	50	1	0	47	1.14
1477047--1477099	12	4.7	12	75	13	58	49	0	0	50	1.00
1476904--1477075	57	3.0	57	76	16	158	50	1	0	48	1.13
1476946--1477084	21	6.5	22	68	17	69	50	0	0	48	1.11
1477023--1477080	22	2.6	22	78	8	64	55	0	0	44	0.99
1481778--1481837	13	4.8	13	75	19	56	66	3	1	28	1.17
1489605--1490314	208	3.3	214	87	4	1044	50	8	10	29	1.67
1490406--1490680	2	140.5	2	64	20	75	48	3	3	45	1.36
1490471--1490550	28	2.9	27	81	7	99	45	5	6	43	1.51
1490536--1490698	32	4.8	36	70	20	111	48	2	4	44	1.35
1490525--1490656	32	4.2	32	75	11	119	50	3	3	43	1.33
1490523--1490710	63	2.7	67	82	15	215	48	3	4	44	1.38
1490750--1490822	7	10.4	7	74	11	51	45	31	0	23	1.53
1490754--1490821	28	2.4	27	87	4	91	42	32	0	25	1.55
1490750--1490810	14	4.3	15	78	12	67	42	32	0	24	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1490845--1490927	43	1.9	44	87	2	123	42	6	9	42	1.62
1490900--1490990	26	3.4	26	74	14	103	39	4	13	42	1.64
1490864--1491058	20	9.9	20	68	23	96	42	6	8	43	1.60
1490981--1491021	15	2.6	16	88	7	66	46	7	4	41	1.53
1490970--1491044	35	2.0	39	85	10	104	44	8	5	42	1.56
1490872--1491074	55	3.6	55	90	5	284	41	6	9	42	1.64
1491001--1491059	22	2.7	22	78	17	68	42	8	5	44	1.57
1491069--1491159	21	4.3	20	70	16	58	38	7	7	46	1.61
1491176--1491381	65	3.2	64	78	12	197	43	4	3	48	1.39
1491198--1491288	43	2.2	40	86	7	119	43	4	3	48	1.39
1491170--1491408	130	1.8	130	81	10	301	44	3	3	48	1.38
1491341--1491423	40	2.0	44	83	9	111	49	2	2	45	1.28
1505063--1505091	2	14.5	2	100	0	58	51	0	0	48	1.00
1510950--1510978	14	2.1	14	100	0	58	34	27	27	10	1.89
1511220--1511267	23	2.1	23	84	0	60	41	6	16	35	1.74
1511268--1511507	71	3.2	71	65	21	169	41	11	11	35	1.77
1511296--1511542	78	3.1	78	64	21	179	43	12	12	32	1.79
1511369--1511418	23	2.2	23	85	0	64	40	8	18	34	1.79
1511193--1512028	158	5.3	158	91	0	1276	42	11	12	33	1.80
1511527--1511576	23	2.2	23	85	0	64	40	10	16	34	1.81
1511685--1511734	23	2.2	23	88	0	73	38	12	16	34	1.85
1511697--1511741	23	2.0	23	86	0	63	40	11	15	33	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1511843--1511892	23	2.2	23	85	0	64	42	12	14	32	1.82
1512107--1512422	73	4.3	74	88	3	428	39	13	11	35	1.81
1512620--1512675	21	2.7	21	100	0	112	39	14	10	35	1.81
1512509--1512789	133	2.1	134	89	3	424	43	12	12	32	1.79
1512651--1512933	114	2.5	114	93	0	467	44	13	10	31	1.78
1513860--1513909	21	2.4	21	96	0	91	44	4	20	32	1.70
1518778--1519460	54	12.8	54	80	8	443	25	24	18	31	1.97
1518945--1519102	55	2.9	55	92	0	255	31	25	13	29	1.94
1519101--1519450	51	6.7	51	86	4	468	21	25	20	32	1.98
1519101--1519461	155	2.3	157	85	5	507	22	25	19	32	1.98

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23