genome.fa.s8214.2.7.7.80.10.50.1000.8.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: VEPZ01008214.1 Hibiscus syriacus cultivar Beakdansim tig00110840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2117680

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

This is table  8  of  11  ( 1291 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)
1396642--1396704	25	2.4	26	82	10	67	26	31	1	39	1.66
1396669--1396736	32	2.2	31	86	5	93	25	33	1	39	1.65
1400608--1400940	131	2.6	126	77	7	328	42	14	9	33	1.79
1405758--1405793	18	2.0	18	100	0	72	33	0	5	61	1.19
1408901--1409008	20	5.3	20	88	4	137	44	16	20	18	1.87
1409366--1409406	21	2.0	21	95	0	73	19	17	14	48	1.81
1409399--1409546	20	7.4	20	76	2	118	19	15	23	41	1.90
1409379--1409550	40	4.3	40	75	6	161	19	15	22	43	1.88
1409596--1409672	20	3.8	20	86	3	84	18	16	25	38	1.92
1414513--1414547	16	2.2	16	89	0	52	28	14	17	40	1.88
1414820--1414856	13	2.7	14	84	15	51	43	2	0	54	1.14
1415531--1415680	2	76.5	2	65	22	52	44	8	2	45	1.44
1415527--1415561	12	3.0	12	87	4	54	57	0	2	40	1.14
1415552--1415634	13	6.3	13	71	19	57	39	10	0	49	1.38
1415563--1415634	20	3.7	20	70	15	62	38	11	0	50	1.38
1415566--1415684	32	3.7	31	72	17	91	42	9	1	47	1.45
1415618--1415725	19	5.9	19	67	18	59	44	6	6	42	1.56
1416329--1416379	21	2.4	21	75	12	50	39	25	13	21	1.90
1428144--1428200	29	2.0	29	89	0	87	22	7	24	45	1.77
1434185--1434214	16	1.9	16	93	6	53	53	3	0	43	1.17
1433910--1434334	211	2.0	213	97	1	802	43	9	12	34	1.75
1433910--1434334	212	2.0	212	96	1	791	43	9	12	34	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1435662--1435719	26	2.2	26	100	0	98	24	6	27	41	1.80
1435848--1435877	15	2.0	15	100	0	60	6	13	40	40	1.71
1439311--1439470	65	2.5	64	85	3	196	31	22	18	26	1.97
1446907--1446958	21	2.5	21	81	3	52	7	46	13	32	1.72
1448096--1448248	65	2.4	64	84	3	182	32	21	17	28	1.96
1450083--1450129	24	2.0	24	91	0	76	31	19	21	27	1.97
1450087--1450138	24	2.2	24	82	0	59	34	21	19	25	1.96
1450147--1450923	394	2.0	394	96	0	1437	31	14	19	34	1.92
1451254--1451291	16	2.5	15	84	12	51	65	0	5	28	1.14
1451299--1451351	22	2.5	22	93	3	90	26	9	39	24	1.86
1451452--1451559	20	5.5	20	71	13	73	37	12	20	29	1.89
1451471--1451560	40	2.2	40	84	3	110	37	12	20	30	1.89
1451582--1451682	20	5.0	20	72	15	84	23	15	25	34	1.95
1455570--1455661	42	2.2	42	94	0	157	16	13	20	50	1.78
1455859--1455935	22	3.4	23	77	12	70	48	1	0	50	1.09
1455883--1455962	32	2.5	32	80	14	92	47	2	0	50	1.14
1455925--1455977	23	2.3	23	87	6	72	52	1	1	43	1.23
1456115--1456159	23	2.0	23	86	0	63	53	2	2	42	1.25
1456493--1456551	14	4.1	14	71	4	55	37	16	6	38	1.76
1456477--1456517	20	2.0	20	85	0	55	34	19	7	39	1.80
1456622--1456670	21	2.4	20	86	3	62	38	22	16	22	1.92
1459585--1459638	20	2.8	20	88	2	83	22	18	27	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1459540--1459702	84	1.9	84	86	7	233	26	15	25	32	1.95
1459664--1459702	20	1.9	21	89	5	62	17	15	30	35	1.91
1460387--1460444	20	2.9	20	92	0	89	31	31	15	22	1.95
1460464--1460554	45	2.0	46	89	2	139	28	25	19	26	1.99
1465299--1465360	11	5.9	11	69	17	51	58	3	1	37	1.24
1467521--1467575	11	5.0	11	90	0	74	21	14	23	40	1.90
1467521--1467587	22	3.0	22	84	2	80	25	14	22	37	1.93
1467537--1467595	11	5.3	11	85	4	55	27	16	23	32	1.96
1477621--1477650	14	2.1	15	93	6	53	36	3	0	60	1.14
1479268--1479468	65	3.1	63	77	10	201	30	24	18	26	1.98
1482064--1482177	38	3.0	38	83	5	142	40	20	10	28	1.85
1487122--1487167	18	2.6	18	96	0	83	58	21	13	6	1.57
1490856--1490914	24	2.6	22	84	7	75	23	11	25	38	1.89
1490856--1490913	12	5.1	12	71	12	50	24	12	25	37	1.90
1496126--1496153	2	14.0	2	100	0	56	50	0	0	50	1.00
1498995--1499091	24	4.0	24	73	5	61	18	15	16	49	1.80
1501670--1501728	29	2.0	29	83	6	75	44	0	1	54	1.10
1501758--1501797	19	2.0	20	86	13	57	40	0	2	57	1.12
1501883--1501925	13	2.9	15	83	13	54	55	0	4	39	1.20
1507150--1507230	15	5.4	15	84	0	99	28	2	22	46	1.64
1507354--1507462	23	4.7	23	72	4	94	23	18	22	35	1.95
1507337--1507462	46	2.7	46	81	2	137	21	19	22	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1509525--1510400	437	2.0	436	95	3	1602	29	12	23	34	1.91
1512911--1513012	53	1.9	54	97	2	197	37	17	25	19	1.94
1514036--1514081	20	2.4	19	96	3	83	43	19	19	17	1.88
1514124--1514194	20	3.5	20	77	9	65	32	11	25	30	1.91
1514684--1514724	15	2.7	15	88	0	55	21	7	21	48	1.74
1514843--1514909	23	2.9	23	84	0	89	20	23	23	31	1.98
1514875--1514954	24	3.4	24	74	10	76	21	22	23	32	1.98
1516324--1516403	30	2.7	30	74	14	83	40	7	10	42	1.67
1526950--1527009	26	2.3	26	97	0	111	43	23	16	16	1.87
1526998--1527356	196	1.9	188	84	9	483	40	14	13	31	1.85
1533690--1533756	28	2.4	27	76	16	66	61	7	2	28	1.38
1534849--1535471	83	7.6	83	81	4	672	26	18	21	33	1.96
1534923--1535471	245	2.2	244	86	2	751	26	18	21	33	1.97
1535436--1535503	32	2.1	33	91	5	111	26	14	26	32	1.95
1535374--1535586	115	1.9	114	90	2	340	23	18	24	32	1.97
1535470--1536743	80	15.6	80	84	5	1500	24	18	23	33	1.96
1535129--1535839	368	2.0	357	85	5	973	25	18	22	34	1.96
1535470--1536743	163	7.8	163	86	2	1620	24	18	23	33	1.96
1536720--1536765	22	2.1	22	100	0	92	32	13	28	26	1.93
1536644--1536846	104	2.0	101	89	4	309	26	16	24	32	1.96
1536745--1537533	80	9.7	80	80	5	845	25	18	21	34	1.96
1536745--1537533	163	4.9	163	85	2	1022	25	18	21	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1536745--1537539	243	3.3	240	82	4	951	26	18	21	34	1.96
1543478--1543535	29	2.0	29	86	0	80	13	34	27	24	1.93
1543580--1543619	14	2.9	14	92	0	71	22	40	27	10	1.86
1543606--1543663	20	2.7	21	82	12	73	24	32	32	10	1.89
1543592--1543697	33	3.2	32	85	4	113	25	31	33	10	1.89
1543606--1543667	10	5.9	10	72	10	52	24	32	33	9	1.88
1543624--1543710	33	2.6	33	85	3	113	27	26	36	9	1.87
1543714--1543798	29	2.9	29	92	0	143	21	29	36	12	1.91
1550767--1550798	16	1.9	17	93	6	57	40	0	6	53	1.26
1550772--1550804	16	2.1	16	88	5	50	45	0	6	48	1.27
1576204--1576243	19	2.1	19	90	0	62	35	5	7	52	1.51
1577858--1577902	19	2.4	19	88	0	63	42	17	26	13	1.86
1582361--1582437	20	3.7	20	80	14	84	29	20	16	32	1.95
1582826--1582872	20	2.4	19	82	13	51	19	0	10	70	1.16
1582896--1582928	12	2.6	13	90	4	50	36	12	6	45	1.66
1584479--1584503	13	1.9	13	100	0	50	28	0	16	56	1.41
1585184--1585244	22	2.8	22	95	2	106	29	26	18	26	1.98
1586912--1587175	131	2.0	132	99	0	521	35	18	13	31	1.90
1587584--1587635	19	2.9	17	77	11	50	53	15	13	17	1.72
1588328--1588373	23	2.0	23	86	4	65	32	0	2	65	1.05
1588687--1588757	27	2.6	27	88	0	97	54	18	9	16	1.69
1588687--1588765	27	3.0	26	85	5	90	55	16	8	18	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1589662--1589716	19	2.9	19	71	15	51	45	0	1	52	1.11
1589749--1589795	23	2.0	23	84	8	60	44	2	0	53	1.12
1589713--1589777	24	2.7	24	79	18	64	49	1	0	49	1.10
1589876--1589967	27	3.3	27	72	17	73	46	1	2	50	1.20
1590099--1590179	22	3.3	25	76	16	73	48	0	0	51	1.00
1590112--1590155	23	2.0	22	86	4	61	52	0	0	47	1.00
1590240--1590325	36	2.4	36	88	7	122	51	9	0	39	1.34
1598810--1599220	206	2.0	206	91	0	669	21	13	28	36	1.91
1604982--1605039	25	2.3	26	79	8	66	46	0	1	51	1.11
1607257--1607294	18	2.1	18	85	9	51	39	0	18	42	1.50

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