genome.fa.s8290.2.7.7.80.10.50.1000.7.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: VEPZ01008290.1 Hibiscus syriacus cultivar Beakdansim tig00110954_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1890093

Tables:   1   2   3   4   5   6   7   8   9   

This is table  7  of  9  ( 972 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)
1479584--1479651	20	3.4	20	79	0	82	42	26	13	17	1.86
1479638--1479710	19	3.7	20	90	5	103	34	21	13	30	1.92
1479703--1479749	18	2.5	19	82	6	60	27	23	14	34	1.94
1479618--1479718	40	2.5	40	82	4	114	37	21	12	27	1.90
1479832--1479869	16	2.5	15	84	12	51	28	5	0	65	1.14
1480462--1480495	12	2.8	12	90	0	50	55	29	0	14	1.40
1480616--1480662	24	2.0	24	95	0	85	31	21	12	34	1.91
1482932--1482967	18	2.0	18	94	0	63	55	25	2	16	1.55
1483277--1483317	20	2.0	20	90	0	64	17	17	26	39	1.91
1483283--1483325	20	2.2	20	86	0	59	16	13	23	46	1.83
1483379--1483552	65	2.6	65	90	7	253	52	17	2	27	1.57
1484925--1484980	21	2.7	21	88	0	76	26	23	28	21	1.99
1485267--1485410	63	2.3	63	77	9	141	31	36	14	17	1.90
1487746--1487788	20	2.2	20	95	0	77	23	20	23	32	1.98
1488902--1488934	2	16.5	2	100	0	66	51	0	0	48	1.00
1493465--1493526	26	2.4	26	94	0	106	33	19	20	25	1.96
1497541--1497576	6	5.8	6	96	3	63	19	0	0	80	0.71
1497543--1497595	18	2.8	19	83	8	56	28	0	0	71	0.86
1497546--1497602	19	3.1	18	80	7	62	28	0	0	71	0.86
1498649--1498678	14	2.1	14	100	0	60	40	6	6	46	1.56
1498983--1499016	2	17.0	2	100	0	68	50	0	0	50	1.00
1501449--1501601	59	2.5	58	81	9	155	32	22	22	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1502335--1502443	31	3.5	31	72	12	105	30	14	18	36	1.91
1502335--1502462	31	4.1	31	74	7	98	29	14	19	35	1.92
1502421--1502519	30	3.3	30	85	2	110	20	18	26	35	1.95
1506133--1506241	31	3.5	31	80	12	141	27	18	19	34	1.95
1506133--1506260	31	4.1	32	80	9	131	27	17	20	34	1.95
1506136--1506259	63	2.0	62	88	4	187	28	18	20	33	1.96
1506188--1506291	31	3.4	30	81	6	93	25	17	23	33	1.96
1509450--1509478	11	2.5	12	88	11	51	79	0	20	0	0.74
1509451--1509519	17	4.0	17	78	10	77	75	0	23	1	0.89
1509450--1509527	17	4.4	17	80	6	75	76	0	21	1	0.85
1509452--1509527	19	4.2	17	80	9	71	77	0	21	1	0.84
1511244--1511374	43	3.0	43	94	0	226	28	31	8	32	1.87
1512880--1513040	52	3.0	52	84	7	214	36	13	23	27	1.92
1512880--1513044	56	3.0	55	86	6	221	36	13	23	26	1.92
1514213--1514320	37	2.9	36	71	8	101	31	20	14	33	1.93
1514212--1514314	36	2.8	37	71	7	102	30	21	15	33	1.94
1514171--1514314	73	2.0	73	91	2	236	31	19	14	34	1.92
1514440--1514507	30	2.3	30	94	2	120	41	16	22	20	1.90
1514470--1514698	123	1.9	122	91	0	377	39	14	20	25	1.90
1515038--1515131	3	32.0	3	77	12	97	36	0	0	63	0.94
1515038--1515131	22	4.1	24	76	14	101	36	0	0	63	0.94
1515038--1515131	17	5.5	17	76	17	79	36	0	0	63	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1516309--1516346	12	2.9	13	88	7	51	34	5	2	57	1.35
1516318--1516355	11	3.2	12	88	7	51	31	2	0	65	1.06
1516497--1516529	2	17.0	2	93	6	59	48	0	0	51	1.00
1518150--1518515	182	2.0	184	98	1	718	37	11	15	35	1.83
1519521--1519641	60	2.0	60	100	0	242	42	24	4	28	1.75
1523685--1523785	51	2.0	51	94	0	175	30	21	12	34	1.91
1530511--1530582	37	1.9	36	83	10	92	52	15	9	22	1.71
1531233--1531811	143	4.0	143	87	0	809	35	11	16	36	1.85
1531231--1531811	285	2.0	287	87	0	842	35	11	16	36	1.85
1531768--1531831	29	2.1	31	91	8	105	39	10	23	26	1.88
1537372--1537422	24	2.1	25	89	10	79	47	15	9	27	1.77
1548773--1548835	17	3.6	17	81	8	74	11	23	46	19	1.82
1552594--1552635	17	2.5	17	84	3	50	69	23	2	4	1.20
1553024--1553088	30	2.2	30	91	0	103	46	13	23	16	1.83
1554005--1554100	20	4.7	21	80	11	110	18	20	36	23	1.95
1554005--1554101	41	2.4	40	84	10	117	18	20	36	24	1.95
1555498--1555580	23	3.7	22	80	15	98	30	20	24	25	1.99
1564016--1564050	18	1.9	18	88	0	52	31	0	0	68	0.90
1569201--1569258	29	2.0	29	82	0	71	24	18	18	37	1.94
1571651--1571691	10	4.1	10	81	18	50	31	0	0	68	0.90
1571758--1571844	33	2.6	33	89	5	131	37	21	13	26	1.91
1573383--1573422	18	2.2	18	95	0	71	40	7	27	25	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1575859--1576190	100	3.3	100	92	2	544	34	23	18	23	1.96
1576111--1576219	57	1.9	57	90	0	173	32	25	18	23	1.97
1576173--1576384	105	2.0	107	80	8	243	34	24	16	24	1.96
1576493--1576773	81	3.5	81	78	8	259	30	25	19	23	1.98
1576493--1576753	83	3.2	78	78	9	272	31	25	19	23	1.98
1577065--1577114	10	5.0	10	81	18	52	36	0	0	64	0.94
1577066--1577128	8	6.7	9	76	20	58	31	0	0	68	0.90
1577066--1577129	3	22.3	3	79	17	50	31	0	0	68	0.90
1577066--1577129	30	2.2	30	86	13	91	31	0	0	68	0.90
1577177--1577262	33	2.6	33	84	1	109	43	15	12	29	1.83
1577587--1577662	30	2.5	29	79	8	80	25	5	1	68	1.18
1584275--1584303	3	9.7	3	100	0	58	68	0	0	31	0.89
1585241--1585278	11	3.5	11	92	0	67	57	0	15	26	1.38
1585312--1585421	54	2.0	54	96	0	202	28	17	7	47	1.74
1586785--1586809	2	12.5	2	100	0	50	52	0	0	48	1.00
1592727--1592784	30	1.9	30	86	6	82	44	18	8	27	1.79
1592804--1592828	13	1.9	13	100	0	50	32	16	20	32	1.94
1594328--1594385	23	2.5	23	88	0	89	5	24	15	55	1.61
1597415--1597528	35	3.3	35	84	0	147	42	20	0	36	1.58
1597522--1597596	35	2.1	35	82	4	89	34	0	21	44	1.53
1600319--1600364	20	2.2	21	88	3	67	34	2	0	63	1.07
1600318--1600379	11	5.7	11	75	21	51	35	1	0	62	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1600346--1600384	14	2.9	13	88	11	53	38	0	0	61	0.96
1601204--1601365	81	2.0	81	96	0	297	53	9	11	24	1.67
1601485--1602004	174	3.0	173	92	0	833	29	17	15	37	1.91
1603949--1604278	167	2.0	166	94	0	579	35	16	9	37	1.82
1605913--1605973	31	2.0	31	93	3	106	24	16	29	29	1.96
1607740--1607790	22	2.3	22	100	0	102	33	9	29	27	1.89
1613008--1613066	3	19.3	3	74	22	52	35	3	0	61	1.13
1614144--1614175	2	16.0	2	100	0	64	50	0	0	50	1.00
1614785--1614832	20	2.3	21	82	13	64	47	4	2	45	1.33
1614939--1614990	2	27.0	2	92	7	90	50	0	0	50	1.00
1616203--1616245	20	2.2	20	100	0	86	32	18	13	34	1.90
1616939--1617582	45	14.2	45	91	2	1011	23	23	18	33	1.97
1616939--1617582	91	7.1	91	93	1	1051	23	23	18	33	1.97
1617835--1617897	3	20.3	3	80	9	56	36	1	0	61	1.05
1617817--1617861	15	3.1	15	83	3	56	22	2	0	75	0.91
1618705--1618816	25	4.2	27	86	8	158	28	9	37	24	1.87
1618707--1618823	26	4.3	28	83	12	154	31	9	37	21	1.85
1619685--1619731	21	2.2	21	88	7	69	48	6	2	42	1.40
1621232--1621257	2	13.0	2	100	0	52	50	0	0	50	1.00
1621265--1621320	24	2.3	25	93	3	96	75	0	5	19	1.00
1628468--1628494	12	2.2	12	100	0	54	70	0	0	29	0.88
1629731--1629772	3	14.3	3	95	5	77	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1629727--1629770	20	2.3	19	92	7	79	68	0	0	31	0.90
1629770--1629810	2	21.0	2	90	5	66	51	0	0	48	1.00
1629800--1629839	21	1.9	21	89	0	62	45	7	2	45	1.45
1629796--1629984	23	8.0	23	72	19	115	44	6	3	44	1.48
1629815--1630114	22	12.4	24	69	18	90	45	7	3	43	1.50
1629814--1629910	26	3.8	26	80	14	94	45	8	4	42	1.53
1629821--1629928	52	2.1	51	82	5	137	45	7	4	42	1.53
1629821--1629985	48	3.4	47	78	14	144	44	7	4	44	1.51
1629909--1630064	79	2.0	80	93	3	271	44	7	3	43	1.51
1630021--1630135	22	5.2	22	77	11	103	42	7	3	46	1.50

Tables:   1   2   3   4   5   6   7   8   9