genome.fa.s250.2.7.7.80.10.50.1000.7.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: VEPZ01000250.1 Hibiscus syriacus cultivar Beakdansim tig00000452_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2850692

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  7  of  12  ( 1407 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)
1478122--1478170	23	2.0	25	88	7	75	0	18	2	79	0.83
1478130--1478177	15	3.3	15	85	5	64	0	16	4	79	0.89
1485399--1485436	15	2.4	16	91	4	60	44	5	18	31	1.72
1490782--1490806	3	8.3	3	100	0	50	64	0	0	36	0.94
1493004--1493100	12	8.2	12	79	16	80	65	0	0	34	0.93
1493003--1493099	9	10.7	9	77	15	85	64	0	0	35	0.93
1493046--1493086	6	6.8	6	91	0	55	58	0	0	41	0.98
1493418--1493685	37	7.3	36	65	9	157	33	13	20	32	1.91
1493418--1493730	73	4.3	73	94	1	531	35	12	20	30	1.90
1493427--1493684	36	7.1	36	69	6	196	34	13	21	31	1.92
1494394--1494451	22	2.6	22	88	0	98	41	12	12	34	1.79
1496900--1497171	93	2.9	93	93	2	458	36	21	13	28	1.91
1501889--1501925	17	2.2	17	95	4	67	70	5	8	16	1.30
1504241--1504289	13	3.8	13	76	10	55	73	0	0	26	0.83
1504244--1504301	16	3.6	15	81	11	62	72	0	1	25	0.94
1504244--1504301	23	2.6	23	78	10	66	72	0	1	25	0.94
1506615--1506711	12	8.2	12	79	16	80	65	0	0	34	0.93
1506614--1506710	9	10.7	9	77	15	85	64	0	0	35	0.93
1506657--1506697	6	6.8	6	91	0	55	58	0	0	41	0.98
1508325--1508351	2	13.5	2	100	0	54	51	0	0	48	1.00
1509722--1509767	22	2.1	22	84	8	58	43	8	15	32	1.77
1526561--1526599	21	1.9	20	94	5	69	20	0	7	71	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1529404--1529514	40	2.8	40	89	4	179	24	15	27	33	1.95
1532137--1532173	19	1.9	19	88	0	56	29	0	13	56	1.37
1534909--1534944	12	2.8	13	91	8	56	8	16	0	75	1.04
1540438--1540462	10	2.5	10	100	0	50	52	20	8	20	1.71
1547792--1547831	21	2.0	21	90	5	64	27	12	20	40	1.88
1556946--1557018	3	24.0	3	94	2	128	32	1	1	64	1.11
1556813--1557192	195	1.9	196	97	0	726	30	4	12	52	1.60
1557141--1557192	3	17.0	3	92	4	86	32	1	1	63	1.16
1556967--1557346	174	2.2	174	97	0	724	30	4	12	52	1.59
1557314--1557347	12	2.8	12	90	0	50	29	5	2	61	1.34
1562968--1563177	104	2.0	104	100	0	420	30	9	20	39	1.85
1563379--1563455	2	38.5	2	89	0	109	49	45	0	5	1.24
1565199--1565758	36	15.7	35	81	8	495	31	13	7	47	1.71
1566206--1566414	77	2.7	77	81	4	208	39	17	16	26	1.91
1566597--1566623	6	4.5	6	100	0	54	51	0	0	48	1.00
1571402--1571438	12	3.1	12	88	0	56	51	16	0	32	1.45
1571408--1571438	16	1.9	16	93	0	53	51	19	0	29	1.47
1573173--1573256	44	1.9	44	82	0	105	22	23	21	32	1.98
1573256--1573786	36	15.0	36	77	9	446	32	14	8	44	1.76
1573256--1573786	109	5.0	107	78	8	440	32	14	8	44	1.76
1573573--1573645	37	1.9	38	88	2	112	38	12	10	38	1.78
1573256--1573786	71	7.5	71	76	10	406	32	14	8	44	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1573548--1573744	101	2.0	100	82	8	238	35	13	10	40	1.80
1574252--1574418	78	2.2	78	78	7	178	35	17	18	28	1.94
1574297--1574445	78	1.9	77	84	9	196	33	18	20	27	1.96
1579416--1579455	2	20.0	2	100	0	80	50	0	0	50	1.00
1588473--1588556	21	4.0	21	85	0	123	35	32	9	22	1.86
1594659--1594693	18	1.9	18	100	0	70	31	22	28	17	1.96
1600343--1600368	2	13.0	2	100	0	52	50	0	0	50	1.00
1611411--1611451	18	2.3	18	88	12	59	56	0	4	39	1.21
1611916--1611956	21	2.0	21	100	0	82	39	4	0	56	1.21
1619005--1619057	24	2.2	24	79	0	61	60	18	7	13	1.56
1619145--1619177	16	2.0	17	88	5	50	51	0	9	39	1.34
1621721--1621759	18	2.2	18	100	0	78	64	0	20	15	1.30
1623553--1623597	23	2.0	23	86	0	63	26	28	24	20	1.99
1623576--1623879	149	2.0	149	98	0	590	35	20	16	27	1.94
1624365--1624515	67	2.3	67	94	2	259	15	25	28	29	1.96
1631404--1631458	23	2.4	23	74	17	60	47	5	1	45	1.36
1631440--1631486	14	3.1	15	78	12	51	40	2	2	55	1.24
1631645--1631684	14	2.8	14	82	17	55	35	0	7	57	1.27
1631637--1631690	28	2.0	27	82	10	65	35	1	7	55	1.39
1632894--1633040	58	2.5	59	80	4	154	32	16	12	38	1.87
1634184--1634242	25	2.3	25	82	2	73	44	6	0	49	1.29
1644681--1644765	18	4.7	18	86	7	93	61	0	1	37	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1644694--1644763	3	23.7	3	88	8	108	65	0	1	32	1.01
1644899--1645183	122	2.4	121	94	3	506	22	19	16	41	1.90
1645106--1645631	226	2.4	225	87	4	746	29	19	14	37	1.90
1645112--1645652	113	4.8	113	85	4	659	29	19	14	36	1.91
1646358--1646697	114	3.0	114	89	0	518	32	18	15	34	1.92
1646989--1647037	16	2.8	17	78	12	55	46	6	10	36	1.63
1647391--1647435	19	2.4	19	84	0	63	6	15	0	77	0.96
1660188--1660297	3	36.7	3	90	7	179	65	0	0	33	0.99
1662454--1662525	2	36.5	2	80	13	60	48	0	2	48	1.16
1662439--1662600	45	3.7	45	84	13	223	48	1	4	44	1.35
1662439--1662600	47	3.7	45	83	14	209	48	1	4	44	1.35
1662462--1662666	36	5.4	38	82	15	187	49	1	4	43	1.32
1662777--1662806	6	5.0	6	95	0	51	46	0	0	53	1.00
1662796--1662854	7	8.1	7	83	10	66	23	1	1	72	1.02
1662796--1662854	23	2.6	22	82	12	66	23	1	1	72	1.02
1663643--1663707	14	4.6	14	92	7	114	21	56	21	0	1.42
1663643--1663707	9	6.9	10	89	10	102	21	56	21	0	1.42
1663643--1663707	5	13.8	5	87	12	102	21	56	21	0	1.42
1670820--1670859	9	4.0	10	81	12	55	15	20	27	37	1.92
1670819--1670876	9	6.0	9	82	11	53	15	24	29	31	1.95
1670872--1670902	9	3.4	9	90	0	53	22	51	22	3	1.62
1670894--1670931	17	2.2	17	95	0	67	18	44	23	13	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1670921--1670958	7	5.6	7	93	6	69	15	31	28	23	1.96
1670921--1670958	13	2.8	13	96	4	67	15	31	28	23	1.96
1673274--1673306	6	5.5	6	86	13	50	15	0	0	84	0.61
1673373--1673447	10	6.8	10	73	16	60	17	1	2	78	0.93
1673373--1673440	11	5.9	11	77	17	59	17	1	2	77	0.96
1673338--1673475	29	4.6	30	75	15	108	18	5	4	71	1.23
1673416--1673501	40	2.2	39	83	6	102	18	6	3	70	1.24
1676138--1676191	25	2.2	25	100	0	108	40	24	14	20	1.90
1676857--1676939	40	2.1	40	100	0	166	18	26	12	43	1.84
1677115--1677162	23	2.1	22	88	11	71	29	6	60	4	1.40
1679268--1679374	51	2.1	51	84	3	135	19	28	32	18	1.96
1679570--1679612	10	4.3	10	87	0	68	30	39	0	30	1.57
1679576--1679615	20	2.0	20	100	0	80	25	40	0	35	1.56
1679650--1679691	16	2.5	17	80	7	50	30	0	2	66	1.04
1687861--1687894	15	2.3	15	89	0	50	2	32	11	52	1.53
1693113--1693511	91	4.4	91	86	2	568	23	22	16	36	1.94
1693918--1694102	66	2.8	67	80	7	207	39	15	20	24	1.91
1693849--1694102	67	3.7	67	75	11	187	40	14	18	26	1.89
1693985--1694457	117	4.3	106	83	5	366	36	16	19	27	1.93
1694154--1694466	39	8.0	39	90	0	437	35	18	18	28	1.94
1694470--1694630	75	2.1	76	87	5	229	41	12	16	29	1.85
1704183--1704492	152	2.0	152	99	0	613	32	14	28	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1705112--1705147	18	1.9	18	88	5	54	19	5	2	72	1.17
1706060--1706096	16	2.4	16	90	4	58	21	0	0	78	0.75
1706065--1706097	10	3.4	10	87	8	50	24	0	0	75	0.80
1716382--1717321	105	9.0	105	89	1	1379	33	25	18	23	1.97
1716382--1717321	415	2.2	417	89	2	1438	33	25	18	23	1.97
1719099--1719134	18	1.9	18	88	5	54	19	5	2	72	1.17
1721565--1721597	14	2.3	15	89	5	50	75	0	0	24	0.80
1721598--1721624	3	9.0	3	100	0	54	33	0	33	33	1.58
1721662--1721719	31	1.9	30	89	3	89	51	1	0	46	1.11
1733828--1734176	183	1.9	182	95	0	626	27	21	21	30	1.98

Tables:   1   2   3   4   5   6   7   8   9   10   11   12