genome.fa.s7952.2.7.7.80.10.50.1000.8.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: VEPZ01007952.1 Hibiscus syriacus cultivar Beakdansim tig00110377_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3169409

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  8  of  16  ( 1872 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)
1418121--1418212	30	3.0	30	85	1	103	23	20	22	32	1.98
1418149--1418220	30	2.4	30	90	0	108	27	20	20	30	1.98
1427873--1427902	15	2.0	15	93	0	51	56	0	3	40	1.16
1428494--1428527	16	2.1	16	94	0	59	44	5	2	47	1.42
1428499--1428533	16	2.1	16	89	5	52	42	8	0	48	1.33
1443955--1444321	177	2.0	182	94	5	651	46	3	2	47	1.33
1446376--1446425	20	2.5	20	90	0	82	30	18	24	28	1.97
1446956--1447018	22	2.9	22	92	4	101	19	20	33	26	1.96
1447814--1447876	22	2.9	22	92	4	101	19	20	33	26	1.96
1448281--1448326	23	2.0	23	83	12	58	41	15	4	39	1.67
1448604--1448728	31	4.0	31	88	2	189	38	22	19	20	1.94
1449247--1449408	64	2.5	64	81	2	182	29	17	19	33	1.95
1452563--1452687	31	4.0	31	95	2	216	38	23	19	19	1.93
1453322--1453471	64	2.3	64	80	6	180	28	19	20	32	1.97
1458837--1459055	21	10.3	21	75	15	186	19	18	23	37	1.94
1458837--1459059	42	5.3	42	93	2	374	19	18	23	37	1.94
1458837--1459059	86	2.6	85	91	2	369	19	18	23	37	1.94
1459148--1459181	12	3.1	11	91	8	52	29	52	17	0	1.45
1459683--1459709	6	4.5	6	100	0	54	0	14	51	33	1.43
1459825--1460001	21	8.5	21	80	12	177	23	22	23	30	1.99
1459800--1459987	62	3.0	62	74	18	185	26	21	21	29	1.99
1459845--1459987	41	3.5	41	89	5	209	23	22	21	32	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1459867--1459939	20	3.6	20	79	17	96	23	21	19	35	1.96
1460003--1460336	170	2.0	171	97	2	640	33	13	17	35	1.89
1468188--1468251	32	2.0	32	93	0	110	53	10	0	35	1.36
1468198--1468658	80	5.7	79	85	9	469	52	11	0	35	1.40
1468261--1468712	54	8.3	54	75	13	379	53	10	0	36	1.38
1468358--1468442	32	2.7	32	98	0	161	54	9	0	36	1.33
1468380--1468433	14	3.6	14	72	18	54	57	5	0	37	1.22
1468422--1468486	22	3.0	22	88	8	105	53	6	0	40	1.26
1468524--1468583	18	3.6	18	71	17	65	56	8	0	35	1.29
1468500--1468548	22	2.2	22	85	3	62	57	10	0	32	1.32
1468520--1468712	32	6.7	32	74	22	169	53	9	0	36	1.34
1468584--1468626	22	2.0	22	95	0	77	53	11	0	34	1.37
1468586--1468634	22	2.2	22	85	3	62	57	12	0	30	1.36
1468638--1468680	22	2.0	22	95	0	77	51	11	0	37	1.39
1468640--1468688	22	2.2	22	85	3	62	55	12	0	32	1.37
1468740--1468837	32	3.4	31	73	26	115	53	9	0	37	1.33
1468723--1468837	54	2.1	54	96	0	212	52	9	0	38	1.34
1468772--1468873	22	4.5	22	69	12	82	51	6	0	41	1.28
1468817--1468852	15	2.5	15	95	4	65	58	0	0	41	0.98
1468837--1468882	21	2.2	21	92	3	76	45	8	0	45	1.34
1469899--1469923	10	2.5	10	100	0	50	32	0	0	68	0.90
1470057--1470116	2	30.5	2	96	3	113	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1470289--1470430	73	2.0	71	91	5	232	57	1	11	28	1.43
1473313--1473360	2	24.0	2	100	0	96	50	0	0	50	1.00
1474996--1475052	29	2.0	28	82	3	69	38	14	12	35	1.83
1474852--1475089	102	2.3	101	80	7	282	37	13	18	30	1.90
1475067--1475252	30	5.8	30	70	21	135	40	15	15	28	1.87
1475097--1475325	36	6.6	36	71	17	180	41	15	14	28	1.87
1474991--1475281	133	2.2	133	87	3	417	40	15	16	28	1.88
1474976--1475281	66	4.6	66	88	2	409	40	15	16	28	1.88
1476696--1476732	18	2.0	19	89	5	58	13	13	13	59	1.62
1477898--1477931	18	1.9	18	88	5	52	23	14	8	52	1.69
1481167--1481220	2	27.0	2	100	0	108	50	0	0	50	1.00
1481292--1481324	17	1.9	17	88	11	50	54	0	15	30	1.41
1482168--1482214	22	2.1	22	88	0	67	21	31	10	36	1.88
1493837--1493902	19	3.5	18	80	12	62	37	18	22	21	1.94
1493929--1493979	20	2.5	20	83	0	75	19	17	29	33	1.95
1508448--1508519	20	3.3	20	72	20	72	48	12	5	33	1.64
1508455--1508547	26	3.8	25	75	16	97	48	12	6	32	1.67
1508448--1508545	46	2.1	46	96	3	180	47	13	6	32	1.67
1509419--1509607	19	10.0	19	76	3	103	35	8	20	35	1.83
1509420--1509588	38	4.5	38	75	7	155	36	7	20	36	1.81
1509507--1509617	38	2.9	38	81	1	116	33	12	18	35	1.89
1509719--1510070	40	8.8	40	70	8	216	35	16	21	26	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1509710--1510070	80	4.5	80	81	3	402	36	16	21	26	1.94
1509706--1510070	161	2.3	160	82	2	437	36	16	20	26	1.94
1515620--1515805	97	1.9	97	94	0	327	32	20	11	35	1.88
1516261--1516335	21	3.6	21	72	3	62	24	20	22	33	1.97
1516929--1517004	21	3.7	21	80	7	75	26	13	22	38	1.91
1520834--1520863	15	1.9	15	93	6	51	0	23	0	76	0.78
1522387--1522462	21	3.6	21	81	10	93	23	17	22	36	1.94
1522382--1522477	42	2.3	42	85	7	133	28	14	23	33	1.94
1523791--1523834	18	2.4	19	84	7	63	34	11	22	31	1.90
1523802--1523871	19	3.8	18	71	14	61	34	15	17	32	1.91
1523981--1524616	80	8.0	80	80	2	650	36	13	21	28	1.92
1523995--1524616	40	15.6	39	68	13	252	35	13	21	28	1.92
1524657--1524729	2	37.0	2	97	2	139	49	0	0	50	1.00
1531094--1531136	2	21.5	2	100	0	86	48	0	0	51	1.00
1531162--1531200	20	2.0	20	94	0	69	15	7	7	69	1.35
1537206--1537382	41	4.3	41	93	0	291	31	11	21	36	1.89
1537153--1537362	82	2.6	82	85	0	213	33	10	20	35	1.86
1537203--1537408	82	2.5	82	87	1	270	31	10	21	36	1.88
1537377--1537448	33	2.2	33	84	0	90	36	5	19	38	1.75
1544615--1544688	37	2.0	37	100	0	148	35	13	29	21	1.92
1545432--1545518	40	2.2	40	82	2	102	35	6	20	36	1.80
1545444--1545584	41	3.5	41	78	9	137	31	7	22	37	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1545508--1545600	41	2.3	41	92	3	152	31	5	25	37	1.79
1553912--1553962	22	2.3	21	75	15	50	66	1	15	15	1.34
1558310--1558361	21	2.3	23	87	6	72	36	9	1	51	1.46
1571874--1571915	21	2.0	21	85	0	57	23	23	35	16	1.95
1573632--1573662	12	2.6	12	100	0	62	16	0	54	29	1.42
1579605--1579674	21	3.3	21	91	0	113	25	28	24	21	1.99
1582465--1582610	73	2.0	73	100	0	292	26	17	16	39	1.91
1584006--1584044	20	1.9	21	89	5	62	17	15	28	38	1.91
1587305--1587329	6	4.2	6	100	0	50	36	48	16	0	1.46
1587955--1587985	6	5.2	6	92	0	53	3	16	48	32	1.62
1588035--1588155	42	2.9	42	92	0	197	38	24	16	20	1.93
1588079--1588209	61	2.1	62	90	2	201	35	23	19	22	1.96
1588230--1588273	21	2.1	21	86	0	61	18	20	31	29	1.96
1588615--1588644	12	2.4	12	94	5	51	43	0	0	56	0.99
1591649--1591685	17	2.2	17	90	0	56	64	10	5	18	1.43
1597287--1597323	18	2.2	18	85	9	51	16	2	10	70	1.27
1601699--1601756	2	29.0	2	100	0	116	50	0	0	50	1.00
1604084--1604136	18	2.9	18	88	0	79	24	32	20	22	1.98
1605426--1605501	10	7.3	10	76	24	77	35	13	9	42	1.76
1605425--1605501	21	3.7	21	100	0	154	35	12	9	42	1.75
1605436--1605495	11	5.6	11	78	21	74	31	15	10	43	1.79
1610553--1610581	14	2.1	14	100	0	58	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1614784--1614859	36	2.1	36	85	7	100	47	1	3	47	1.29
1615005--1615042	20	1.9	20	88	0	58	21	26	10	42	1.85
1620058--1620087	15	2.0	15	100	0	60	13	46	26	13	1.80
1622224--1622260	19	1.9	19	88	0	56	54	8	0	37	1.30
1623279--1623346	21	3.1	21	74	19	68	25	4	0	70	1.05
1623319--1623400	19	4.1	19	84	4	65	39	2	0	58	1.11
1623344--1623404	2	30.5	2	91	6	97	45	3	0	50	1.17
1626907--1626957	13	3.8	14	82	15	63	74	3	17	3	1.12
1626905--1626957	28	2.0	27	89	10	83	75	3	16	3	1.10
1628606--1628680	37	2.0	38	84	2	98	30	21	13	34	1.92

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16