genome.fa.s9610.2.7.7.80.10.50.1000.8.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: VEPZ01009610.1 Hibiscus syriacus cultivar Beakdansim tig00116996_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3811333

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

This is table  8  of  18  ( 2160 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)
1494948--1495280	20	16.5	20	81	9	274	20	14	23	41	1.89
1494948--1495280	100	3.3	101	78	14	323	20	14	23	41	1.89
1497468--1497563	37	2.6	38	84	1	131	41	11	10	36	1.76
1500831--1500920	43	2.1	43	100	0	180	17	25	25	31	1.97
1506872--1506896	12	2.1	12	100	0	50	52	8	8	32	1.60
1511392--1511461	34	2.1	32	89	5	104	21	31	15	31	1.95
1511669--1511708	21	1.9	22	90	10	66	12	10	40	37	1.77
1511815--1511857	20	2.1	21	91	4	70	20	25	39	13	1.90
1511891--1511928	19	2.1	18	90	9	60	10	18	47	23	1.79
1512054--1512114	29	2.0	31	90	9	99	44	14	6	34	1.72
1513267--1513312	20	2.4	19	85	7	58	30	13	6	50	1.66
1514168--1514237	34	2.1	32	89	5	104	21	31	15	31	1.95
1514448--1514487	21	1.9	22	90	10	66	12	10	40	37	1.77
1514649--1514728	21	4.0	21	75	21	91	12	27	36	23	1.91
1514650--1514722	36	2.0	37	91	2	121	13	27	34	24	1.93
1514671--1514700	15	2.0	15	100	0	60	13	26	33	26	1.93
1514817--1514876	29	2.0	31	93	6	106	43	16	6	33	1.74
1518226--1518255	6	4.8	6	95	4	51	13	0	3	83	0.77
1520278--1520318	18	2.3	18	100	0	82	19	12	4	63	1.46
1521781--1521820	21	1.9	21	100	0	80	35	50	10	5	1.58
1528539--1528584	14	3.3	13	85	11	56	28	26	19	26	1.99
1528592--1528666	37	2.0	37	87	5	107	20	26	24	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1530796--1530880	24	3.5	24	85	0	116	27	15	18	38	1.91
1545394--1545430	19	1.9	19	94	0	65	32	29	16	21	1.95
1545464--1545517	21	2.6	21	78	0	63	27	20	20	31	1.97
1545490--1545866	166	2.3	166	95	0	682	30	20	19	29	1.97
1545834--1545890	20	2.8	21	78	2	71	40	15	22	21	1.91
1545834--1545903	20	3.5	20	75	7	61	40	17	21	21	1.92
1545925--1545971	20	2.3	20	85	7	60	21	19	31	27	1.97
1546032--1546085	21	2.7	20	70	16	56	40	18	22	18	1.91
1545856--1546193	186	1.8	186	94	0	604	30	19	21	28	1.98
1546616--1546720	19	5.2	19	80	13	102	32	27	4	35	1.78
1546912--1546947	2	18.5	2	88	5	56	44	0	0	55	0.99
1547079--1547125	17	2.8	17	100	0	94	27	17	23	31	1.96
1547774--1547813	18	2.2	19	90	4	64	32	0	0	67	0.91
1551853--1551987	48	2.8	47	83	6	157	33	7	17	41	1.78
1552324--1552466	39	3.7	38	70	14	114	23	17	25	33	1.96
1552392--1552636	93	2.6	91	82	5	258	24	14	22	37	1.92
1560875--1561178	124	2.4	124	90	2	466	31	17	27	23	1.97
1561915--1562108	36	5.4	36	86	1	237	36	22	19	21	1.95
1562478--1562723	51	4.6	53	88	3	277	33	17	22	25	1.96
1562597--1563356	55	14.0	54	85	4	738	30	15	27	27	1.96
1562632--1563356	163	4.4	164	85	5	900	29	14	27	27	1.95
1562687--1563332	218	3.0	216	93	2	1055	29	14	28	27	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1572035--1572382	184	1.9	183	98	0	678	31	15	15	37	1.89
1574936--1574979	20	2.2	20	91	0	70	34	22	20	22	1.97
1574993--1575103	20	5.5	20	73	11	84	30	20	14	34	1.93
1574984--1575103	40	3.0	40	79	6	134	30	21	14	34	1.93
1574995--1575123	20	6.5	20	70	16	72	28	20	15	34	1.94
1575892--1575925	12	2.8	12	90	0	50	55	29	0	14	1.40
1578842--1578874	13	2.4	14	95	5	59	48	21	0	30	1.50
1582235--1582268	16	2.1	16	89	10	52	76	2	0	20	0.92
1592152--1592183	13	2.4	14	90	10	50	28	0	0	71	0.86
1596634--1596698	24	2.8	23	82	13	80	78	6	13	1	1.01
1596648--1596694	11	3.7	13	83	13	62	76	4	17	2	1.04
1599485--1599530	18	2.5	18	89	3	65	0	30	23	45	1.53
1599495--1599545	18	2.8	19	85	5	52	1	27	25	45	1.64
1601115--1601163	23	2.4	19	83	16	62	20	30	24	24	1.98
1601383--1601421	20	2.0	19	95	5	69	41	7	10	41	1.68
1603719--1604116	202	2.0	201	96	3	746	34	16	13	34	1.88
1607594--1607715	43	2.8	44	83	3	140	30	29	18	22	1.97
1607855--1608098	124	2.0	124	85	0	335	32	25	17	24	1.97
1608215--1608490	36	7.8	36	79	9	300	26	19	14	39	1.90
1608215--1608557	109	3.3	102	78	11	331	26	20	13	39	1.90
1609636--1609705	35	2.0	35	94	5	124	17	32	30	20	1.95
1610311--1610346	15	2.4	15	90	0	54	13	16	33	36	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1619423--1619474	22	2.2	24	86	6	72	38	1	0	59	1.08
1622772--1622901	66	2.0	66	84	6	174	20	20	23	36	1.95
1623624--1623665	19	2.2	19	100	0	84	14	30	35	19	1.91
1625511--1625551	20	2.0	20	95	0	73	12	9	58	19	1.61
1625822--1625847	2	13.0	2	100	0	52	50	0	0	50	1.00
1625891--1625935	14	3.4	14	74	22	51	35	0	6	57	1.25
1627318--1627366	24	2.0	24	96	0	89	10	10	24	55	1.64
1627324--1627378	24	2.3	24	87	0	74	12	9	20	58	1.61
1628453--1628507	16	3.4	16	92	0	92	10	12	20	56	1.66
1628571--1628603	16	2.1	16	100	0	66	6	12	24	57	1.57
1628980--1629044	31	2.1	31	85	5	87	24	23	9	43	1.83
1639571--1639661	31	2.9	32	80	8	107	36	6	13	43	1.70
1639574--1639672	31	3.2	32	71	15	82	37	7	12	43	1.69
1643443--1643480	17	2.2	17	90	9	60	63	2	0	34	1.09
1643452--1643489	16	2.3	17	81	4	51	65	5	0	28	1.14
1643519--1643568	10	5.0	10	82	0	55	44	0	30	26	1.55
1643929--1644014	43	2.0	43	97	0	163	38	9	12	39	1.76
1645112--1645178	30	2.2	30	94	0	116	31	23	19	25	1.98
1647806--1647905	24	4.2	24	74	5	94	47	17	14	22	1.82
1647799--1647907	48	2.3	48	77	0	119	48	16	13	21	1.80
1649035--1649070	18	2.0	18	88	0	54	30	16	0	52	1.44
1650371--1650444	13	5.3	13	75	15	67	17	21	43	17	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1650377--1650414	18	2.1	18	95	0	67	10	21	50	18	1.76
1652395--1652423	2	14.5	2	100	0	58	51	0	0	48	1.00
1652589--1652688	24	4.2	24	74	5	94	47	17	14	22	1.82
1652582--1652690	48	2.3	48	77	0	119	48	16	13	21	1.80
1653818--1653853	18	2.0	18	88	0	54	30	16	0	52	1.44
1655155--1655228	13	5.3	13	75	15	67	17	21	43	17	1.88
1655161--1655198	18	2.1	18	95	0	67	10	21	50	18	1.76
1655237--1655285	9	5.1	9	80	9	53	38	30	18	12	1.87
1655237--1655298	30	2.1	30	100	0	124	40	30	16	12	1.86
1655841--1655865	2	12.5	2	100	0	50	52	0	0	48	1.00
1656031--1656130	24	4.2	24	74	5	94	47	17	14	22	1.82
1656024--1656132	48	2.3	48	77	0	119	48	16	13	21	1.80
1658597--1658670	13	5.3	13	75	15	67	17	21	43	17	1.88
1658603--1658640	18	2.1	18	95	0	67	10	21	50	18	1.76
1659709--1659762	28	1.9	28	88	0	81	29	33	7	29	1.85
1659674--1659756	41	2.0	41	88	0	121	27	33	7	31	1.84
1668284--1668314	2	15.5	2	100	0	62	51	0	0	48	1.00
1672221--1672250	11	2.7	11	100	0	60	56	0	36	6	1.26
1672345--1672502	81	2.0	81	93	2	273	26	13	18	41	1.87
1674466--1674504	20	2.0	20	94	0	69	23	10	10	56	1.63
1674590--1674725	10	14.4	9	70	18	66	23	3	0	72	1.06
1677311--1677508	99	2.0	99	88	0	297	32	16	18	32	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1678346--1678833	80	6.1	80	90	0	733	32	23	19	23	1.97
1678346--1679369	240	4.3	241	77	9	991	33	23	19	23	1.97
1678697--1678963	144	1.9	140	87	3	390	35	21	19	23	1.96
1678837--1679386	155	3.4	167	81	7	609	34	22	18	23	1.96
1678833--1679243	84	5.0	84	84	2	526	35	22	17	23	1.95
1679171--1679314	71	2.0	71	94	0	252	32	22	19	25	1.97
1679360--1679412	26	2.0	26	96	0	97	35	26	13	24	1.92
1679274--1679496	110	2.0	110	94	0	392	34	24	19	21	1.97
1679384--1679711	85	3.9	84	86	3	410	32	24	19	23	1.97
1681150--1681196	20	2.3	21	78	14	53	23	12	10	53	1.70

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