genome.fa.s7822.2.7.7.80.10.50.1000.8.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: VEPZ01007822.1 Hibiscus syriacus cultivar Beakdansim tig00110159_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1828853

Tables:   1   2   3   4   5   6   7   8   9   10   

This is table  8  of  10  ( 1099 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)
1448476--1448541	31	2.2	30	83	8	80	51	1	6	40	1.36
1453521--1453568	12	4.2	11	94	5	78	50	29	0	20	1.49
1456996--1457120	31	4.0	31	80	9	146	29	19	20	31	1.97
1457107--1457178	30	2.4	30	85	0	90	20	22	26	30	1.98
1468337--1468439	34	3.2	33	67	18	90	45	8	2	42	1.50
1468304--1468492	63	2.9	62	87	4	234	46	8	2	42	1.48
1468305--1468517	63	3.3	63	79	10	200	46	8	3	42	1.50
1476074--1476147	31	2.4	31	93	0	112	18	10	14	55	1.68
1476885--1476974	31	2.9	31	91	0	135	51	13	13	22	1.75
1483567--1483591	3	8.3	3	100	0	50	0	32	0	68	0.90
1483463--1483671	110	1.9	110	95	0	382	20	22	7	49	1.74
1487176--1487227	15	3.5	15	94	0	86	5	15	69	9	1.35
1495238--1495262	3	8.3	3	100	0	50	32	0	0	68	0.90
1498048--1498087	21	1.9	21	85	10	55	62	5	2	30	1.29
1498082--1498136	26	2.2	27	78	18	66	56	1	3	38	1.28
1498548--1498604	21	2.7	20	78	10	60	28	0	3	68	1.06
1499922--1499976	21	2.6	21	82	5	67	36	10	14	38	1.81
1506340--1506381	20	2.2	19	86	4	57	16	4	0	78	0.91
1507780--1507818	2	19.5	2	100	0	78	51	0	0	48	1.00
1509684--1509736	2	26.5	2	88	0	79	5	0	43	50	1.25
1512589--1512690	52	2.0	52	96	0	186	44	4	8	42	1.57
1515237--1515276	21	1.9	21	89	0	62	55	2	7	35	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1518392--1518682	31	9.3	31	76	12	281	28	19	19	31	1.96
1518388--1518724	63	5.4	63	92	1	543	29	19	20	31	1.97
1518388--1518712	125	2.6	125	91	0	542	30	19	19	31	1.96
1520100--1520199	44	2.2	47	91	5	161	42	6	19	33	1.75
1520348--1520440	37	2.5	37	84	6	118	25	24	25	23	2.00
1526638--1526709	22	3.2	22	62	3	54	41	5	20	31	1.76
1526634--1526733	45	2.2	46	91	3	159	43	6	20	31	1.76
1526662--1526734	21	3.3	21	70	15	58	41	6	20	31	1.79
1526882--1526975	38	2.5	37	82	6	116	27	20	26	25	1.99
1533768--1533928	65	2.5	64	89	5	236	31	22	15	29	1.95
1533768--1533948	65	2.8	64	85	5	231	30	23	16	29	1.96
1534689--1534738	26	1.9	26	87	0	73	44	14	10	32	1.78
1536466--1536551	30	2.9	29	82	5	100	37	6	2	53	1.41
1537028--1537088	31	2.0	31	83	6	79	52	11	8	27	1.66
1539363--1539409	24	2.0	24	87	8	69	38	21	14	25	1.92
1540092--1540361	20	13.5	20	86	1	281	20	17	24	37	1.94
1540348--1540426	21	3.8	21	76	5	79	22	17	22	36	1.95
1540328--1540426	42	2.4	43	77	11	100	21	18	22	38	1.93
1542318--1542528	31	6.8	30	75	9	181	29	18	19	32	1.96
1542313--1542499	63	3.0	63	89	0	286	32	17	19	31	1.95
1542316--1542528	62	3.4	62	84	4	268	30	17	19	32	1.95
1544134--1544348	30	7.3	28	73	15	116	39	9	0	50	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1544225--1544349	54	2.3	54	80	14	148	40	8	0	50	1.39
1544273--1544348	31	2.5	30	89	2	116	39	7	0	52	1.31
1544387--1544499	30	3.8	28	80	8	118	50	2	7	38	1.46
1546134--1546177	22	2.0	21	83	12	54	75	6	4	13	1.17
1546377--1546407	2	15.5	2	100	0	62	51	0	0	48	1.00
1546397--1546481	39	2.3	38	86	8	113	62	4	4	28	1.36
1546526--1546623	16	6.6	15	74	17	73	66	0	4	29	1.10
1546520--1546560	22	2.0	22	85	9	59	60	0	2	36	1.10
1546530--1546574	14	3.1	14	90	6	63	66	0	2	31	1.04
1546548--1546617	23	3.1	22	74	15	63	71	0	4	24	1.04
1546526--1546621	14	6.5	14	75	13	52	66	0	4	29	1.10
1546548--1546613	21	3.0	21	75	16	55	71	0	4	24	1.05
1546642--1546694	12	4.4	12	83	6	54	50	3	16	28	1.62
1546659--1546690	12	2.7	12	100	0	64	40	6	18	34	1.76
1549175--1549215	19	2.4	17	88	12	57	2	14	4	78	1.03
1559671--1559712	19	2.2	19	87	8	59	80	2	2	14	0.90
1559756--1559802	17	2.7	17	78	12	51	72	0	10	17	1.12
1559900--1559924	13	1.9	13	100	0	50	80	0	8	12	0.92
1559905--1559942	18	2.1	18	85	9	51	76	0	5	18	0.97
1559954--1560039	39	2.2	39	83	6	102	67	1	4	26	1.17
1560078--1560128	25	2.0	25	88	7	75	56	0	3	39	1.18
1560104--1560185	36	2.3	37	78	16	91	64	0	4	30	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1560869--1560907	14	2.9	13	77	7	51	66	0	0	33	0.92
1561600--1561635	18	1.9	19	88	5	56	58	13	5	22	1.56
1563209--1563259	20	2.6	19	80	17	59	27	3	3	64	1.28
1563212--1563256	21	2.1	22	88	8	67	26	4	4	64	1.32
1565491--1565615	4	31.5	4	71	16	55	73	1	8	16	1.15
1565486--1565526	20	2.0	20	85	9	55	73	2	4	19	1.13
1565549--1565615	13	5.0	13	79	13	73	79	0	5	14	0.92
1565542--1565615	37	2.1	35	89	5	112	79	0	6	13	0.91
1565542--1565604	24	2.9	21	83	9	74	80	0	7	11	0.89
1566683--1566844	34	4.6	34	71	21	104	45	4	2	47	1.35
1566683--1566767	43	2.0	43	88	9	129	48	2	1	48	1.22
1566732--1566829	29	3.2	29	78	18	110	42	5	4	47	1.44
1566921--1566979	24	2.5	24	91	2	93	44	8	3	44	1.51
1566724--1567092	173	2.1	168	80	11	410	43	7	3	44	1.50
1566847--1567054	98	2.1	100	81	10	250	44	9	3	43	1.52
1567681--1568039	84	4.2	86	85	3	262	23	19	22	34	1.97
1567756--1569172	84	16.8	84	83	1	1584	23	18	24	32	1.97
1570346--1570601	95	2.7	95	86	3	331	32	17	16	33	1.92
1574311--1574375	16	3.8	17	75	21	64	80	3	3	13	0.96
1574319--1574362	21	2.2	20	84	12	54	81	2	2	13	0.88
1574311--1574380	33	2.1	34	84	7	90	78	2	2	15	0.99
1575550--1575598	18	2.7	18	84	12	57	79	2	2	16	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1575647--1575830	34	5.2	35	71	13	128	42	3	2	50	1.34
1575640--1575721	42	2.0	43	87	4	123	45	2	1	51	1.22
1575695--1575750	29	2.0	28	89	3	85	42	5	5	46	1.49
1575715--1575828	34	3.3	34	83	10	142	42	4	3	50	1.39
1575756--1575923	90	1.8	93	83	8	229	37	5	8	48	1.58
1575943--1576104	36	4.2	39	71	21	110	46	8	1	44	1.40
1575848--1576057	107	2.0	105	82	10	259	45	9	2	42	1.50
1575938--1576137	75	2.7	75	80	11	198	46	9	2	42	1.46
1576778--1576852	39	1.9	39	91	5	125	21	16	12	50	1.76
1578512--1578586	21	3.7	20	81	3	78	28	25	16	30	1.96
1578574--1578725	20	7.6	20	85	2	198	34	27	19	19	1.95
1579105--1579175	33	2.2	33	94	0	124	11	23	16	47	1.79
1579255--1579327	21	3.5	20	77	7	83	45	17	20	16	1.86
1580061--1580096	14	2.6	14	95	0	63	33	0	22	44	1.53
1580187--1580274	19	4.8	19	81	14	114	48	14	22	13	1.79
1580187--1580293	53	2.0	53	96	1	198	46	15	24	13	1.81
1580284--1580577	72	4.2	69	76	13	262	14	22	18	45	1.84
1580289--1580558	105	2.6	108	90	7	414	13	22	17	46	1.83
1580289--1580558	53	5.1	52	88	8	397	13	22	17	46	1.83
1582842--1582866	12	2.1	12	100	0	50	0	28	0	72	0.86
1583041--1583087	24	2.0	24	87	8	69	38	21	14	25	1.92
1583054--1583104	24	2.1	24	81	0	57	39	19	13	27	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1583779--1584027	20	12.4	20	87	1	257	20	18	24	36	1.94
1584021--1584068	20	2.3	20	85	3	69	35	14	22	27	1.93
1583995--1584148	61	2.5	60	75	6	150	22	15	25	35	1.94
1584941--1584988	7	6.9	7	90	0	78	41	25	0	33	1.55
1587439--1587507	33	2.0	34	86	5	95	23	0	17	59	1.37
1587437--1587510	34	2.2	32	83	9	94	21	0	16	62	1.33
1603606--1603648	23	1.9	23	90	4	70	32	2	16	48	1.58
1603604--1603654	23	2.3	23	79	3	68	37	1	13	47	1.55
1610197--1610260	30	2.0	33	85	8	89	48	1	3	46	1.27
1617738--1617789	14	3.7	14	90	7	79	48	26	0	25	1.52

Tables:   1   2   3   4   5   6   7   8   9   10