genome.fa.s8717.2.7.7.80.10.50.1000.8.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: VEPZ01008717.1 Hibiscus syriacus cultivar Beakdansim tig00111772_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3453450

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

This is table  8  of  16  ( 1896 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)
1464065--1464102	12	3.2	12	88	0	58	13	31	0	55	1.38
1464088--1464127	21	1.9	21	84	0	53	7	42	0	50	1.30
1466368--1466936	204	2.9	194	77	9	562	28	16	13	41	1.86
1466899--1466990	20	4.6	20	76	0	76	28	16	13	42	1.85
1466916--1466996	20	4.1	20	74	6	83	27	19	13	39	1.89
1467412--1467441	2	15.0	2	100	0	60	50	0	0	50	1.00
1467664--1467730	2	33.5	2	100	0	134	50	0	0	49	1.00
1468416--1468455	20	2.0	21	95	5	73	32	20	20	27	1.97
1472105--1472180	2	38.0	2	100	0	152	50	0	0	50	1.00
1475090--1475135	8	6.1	7	90	7	56	47	0	2	50	1.13
1475100--1475135	2	19.0	2	88	11	58	50	0	0	50	1.00
1476005--1476058	14	3.9	13	84	15	65	24	1	1	72	1.05
1476005--1476063	28	2.1	29	87	9	86	25	1	1	71	1.05
1476149--1476196	17	2.9	16	84	12	62	18	8	0	72	1.08
1476159--1476196	15	2.4	15	91	8	58	18	10	0	71	1.14
1476211--1476479	4	62.8	4	68	20	84	17	6	2	73	1.15
1476263--1476484	14	15.5	14	68	19	72	15	5	2	76	1.09
1476276--1476426	9	16.6	9	72	19	66	14	4	3	77	1.06
1476262--1476450	5	37.8	5	66	24	62	15	5	2	76	1.09
1486493--1486529	6	5.4	7	81	18	51	83	0	13	2	0.74
1486494--1486529	14	2.7	13	91	8	63	83	0	13	2	0.76
1486572--1486617	6	7.7	6	81	16	51	80	0	15	4	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1486572--1486602	13	2.4	13	94	0	53	80	0	16	3	0.83
1487574--1487782	58	3.5	58	69	12	195	33	26	15	23	1.95
1487505--1487804	124	2.4	124	94	1	521	35	26	14	24	1.93
1488386--1488427	16	2.6	17	88	7	61	47	0	4	47	1.23
1489714--1489754	18	2.3	18	83	8	57	21	4	0	73	1.02
1489674--1489841	89	1.9	91	79	13	195	24	6	1	67	1.21
1489817--1489976	20	8.4	18	66	21	69	13	7	3	75	1.13
1489846--1489872	14	1.9	14	100	0	54	18	0	7	74	1.05
1489867--1489926	25	2.4	25	80	8	68	16	6	3	73	1.18
1489825--1490014	10	18.7	10	69	20	56	14	7	3	74	1.16
1490709--1490760	12	4.2	12	80	5	50	32	1	0	65	1.04
1491653--1491685	14	2.4	14	94	0	57	27	6	9	57	1.53
1492639--1492739	25	4.0	25	71	12	80	40	1	14	42	1.57
1492708--1492746	14	2.7	15	84	8	53	30	0	17	51	1.46
1492843--1493046	18	11.4	18	69	20	133	43	6	5	45	1.52
1492843--1493058	33	6.1	33	79	14	243	43	6	5	44	1.53
1492848--1493010	80	2.1	77	88	5	238	42	5	6	46	1.52
1493012--1493117	29	3.8	29	80	15	100	46	4	4	44	1.45
1493036--1493145	37	2.9	38	78	4	125	45	4	5	44	1.47
1493194--1493276	2	44.0	2	68	20	54	45	1	1	51	1.16
1493966--1494074	49	2.2	49	98	0	209	34	29	17	18	1.94
1502941--1503004	17	3.8	16	79	8	65	43	9	10	35	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1502934--1503005	34	2.1	35	87	7	103	41	8	12	37	1.73
1502944--1503018	35	2.2	34	80	7	80	42	9	14	33	1.78
1508711--1509169	226	2.0	228	97	1	879	32	16	21	29	1.95
1516661--1516707	24	2.0	24	91	4	78	25	4	4	65	1.29
1522281--1522334	2	27.5	2	96	3	101	50	0	0	50	1.00
1529055--1529109	15	3.4	16	79	16	60	69	5	0	25	1.10
1529116--1529164	15	3.1	15	85	5	62	61	2	12	24	1.42
1530293--1530343	4	12.2	4	80	12	50	66	0	1	31	1.03
1530296--1530371	27	2.6	29	78	19	79	60	2	3	32	1.29
1530293--1530643	11	31.2	11	66	21	94	54	4	1	39	1.30
1530389--1530707	2	170.5	2	67	24	139	53	5	0	40	1.29
1530387--1530701	7	44.9	7	71	16	192	53	5	0	40	1.28
1530332--1530576	66	3.7	64	71	17	175	53	4	2	40	1.33
1530355--1530712	26	13.7	26	67	25	122	53	5	1	40	1.31
1530365--1530701	33	10.0	33	71	19	161	52	5	0	40	1.30
1530387--1530710	131	2.4	138	79	12	314	53	4	0	40	1.29
1531731--1531760	13	2.3	13	94	0	51	20	16	20	43	1.88
1531731--1531779	25	1.9	26	84	12	66	22	20	18	38	1.93
1536574--1536616	22	2.0	22	86	9	61	20	20	18	39	1.93
1542218--1542267	24	2.1	23	88	3	73	30	20	16	34	1.94
1542218--1542272	23	2.3	24	87	3	76	29	18	16	36	1.92
1543118--1543223	49	2.1	50	87	1	151	32	22	6	38	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1543418--1543521	50	2.1	50	87	0	145	30	22	6	40	1.79
1542840--1543964	303	3.8	301	91	2	1752	27	23	12	36	1.90
1544580--1544676	49	2.0	49	82	8	117	37	18	17	26	1.93
1546551--1546627	39	2.0	39	89	0	118	32	10	9	48	1.69
1552744--1553241	250	2.0	248	97	2	937	30	17	15	35	1.91
1553259--1553339	42	1.9	42	94	0	144	29	29	7	33	1.85
1555637--1555710	26	2.8	27	87	4	114	29	21	21	27	1.99
1555927--1555977	25	2.1	24	85	7	68	15	7	3	72	1.23
1555932--1555979	12	3.9	12	78	13	53	20	6	4	68	1.28
1561268--1561676	202	2.0	207	96	3	767	42	19	16	21	1.90
1565344--1565375	16	1.9	17	93	6	57	21	6	3	68	1.26
1567364--1567630	134	2.0	134	99	0	525	37	16	11	35	1.84
1567989--1568393	132	3.0	133	88	5	525	38	18	14	28	1.89
1575230--1575508	137	2.0	137	88	4	411	40	16	14	28	1.88
1577230--1577292	26	2.4	26	86	0	90	30	20	14	34	1.92
1578089--1578576	244	2.0	244	100	0	976	29	15	22	33	1.94
1579129--1579176	25	2.0	24	88	8	71	18	2	6	72	1.15
1585885--1585913	11	2.6	11	100	0	58	34	0	27	37	1.57
1586033--1586077	17	2.6	17	82	0	54	33	8	26	31	1.87
1587025--1587130	29	3.6	28	81	9	97	33	4	0	61	1.17
1587057--1587130	30	2.5	28	87	10	112	31	4	0	64	1.12
1587208--1587302	30	3.2	29	79	8	102	38	8	1	51	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1587593--1587645	23	2.2	23	90	6	79	60	1	5	32	1.31
1588336--1590660	689	3.3	686	87	4	2939	30	10	19	39	1.85
1590638--1590925	144	2.0	144	100	0	576	32	9	18	39	1.83
1591412--1591445	17	2.0	17	88	0	50	73	2	0	23	0.97
1592021--1592229	76	2.9	74	87	7	293	57	12	1	28	1.43
1592070--1592252	76	2.4	77	87	4	260	56	12	2	29	1.47
1594064--1594110	22	2.1	22	92	0	76	74	4	6	14	1.17
1596964--1597012	14	3.4	14	78	15	64	34	2	2	61	1.19
1596957--1597004	15	3.3	15	77	16	64	29	2	4	64	1.23
1597744--1597780	18	2.1	18	100	0	74	16	40	37	5	1.71
1598241--1598276	2	18.0	2	94	0	63	50	0	2	47	1.15
1598331--1598393	9	6.9	9	72	21	51	23	3	1	71	1.09
1598364--1598465	36	2.9	33	75	13	89	24	3	3	67	1.25
1598581--1598609	2	14.5	2	100	0	58	48	0	0	51	1.00
1604570--1605941	106	13.0	106	88	2	1874	34	24	17	23	1.96
1606297--1606398	49	2.1	49	100	0	204	42	28	13	15	1.85
1606729--1606777	14	3.4	14	78	15	64	34	2	2	61	1.19
1606722--1606769	15	3.3	15	77	16	64	29	2	4	64	1.23
1607968--1607998	2	15.5	2	100	0	62	48	0	0	51	1.00
1607966--1608130	8	21.4	8	70	18	59	32	3	1	61	1.24
1608335--1608379	2	22.5	2	100	0	90	48	0	0	51	1.00
1609057--1609121	7	9.1	7	75	18	55	72	0	4	23	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1609057--1609121	15	4.5	15	73	11	57	72	0	4	23	1.03
1609032--1609121	35	2.5	36	84	8	105	70	0	3	26	1.03
1609177--1609210	17	2.0	17	88	0	50	73	2	0	23	0.97
1609830--1609859	12	2.4	13	88	11	53	56	6	0	36	1.26
1609787--1609994	76	2.9	68	80	14	247	57	13	0	28	1.40
1609869--1609994	44	3.1	43	66	29	123	60	13	0	25	1.39
1609844--1609997	76	2.0	77	93	1	265	59	12	0	27	1.39
1609944--1609991	25	2.0	24	83	4	60	60	14	0	25	1.34
1617191--1617220	13	2.3	13	94	0	51	30	6	13	50	1.67
1623933--1623974	22	1.9	22	100	0	84	52	11	4	30	1.59

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