genome.fa.s7850.2.7.7.80.10.50.1000.8.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: VEPZ01007850.1 Hibiscus syriacus cultivar Beakdansim tig00110209_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1775394

Tables:   1   2   3   4   5   6   7   8   9   

This is table  8  of  9  ( 1055 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)
1265251--1265482	69	3.3	69	76	9	200	44	3	5	46	1.40
1265497--1265559	30	2.3	28	79	15	69	14	4	4	76	1.12
1269496--1269755	96	2.7	95	84	5	290	32	16	17	33	1.93
1270552--1271027	240	2.0	240	92	1	794	32	23	18	25	1.97
1271181--1271266	27	3.2	27	100	0	172	32	29	15	23	1.95
1271236--1271892	84	7.9	84	80	6	561	30	23	19	26	1.98
1271236--1271892	164	4.0	164	83	4	728	30	23	19	26	1.98
1272463--1272687	38	6.1	36	83	10	260	45	3	8	42	1.51
1272471--1272689	75	3.0	73	85	8	275	45	3	8	42	1.51
1272672--1272706	14	2.5	14	100	0	70	54	8	5	31	1.54
1272634--1272741	53	2.1	52	91	5	173	49	5	5	39	1.50
1272603--1272778	90	1.9	91	93	3	302	47	3	5	42	1.45
1272705--1272895	37	5.5	36	76	15	181	45	2	6	46	1.42
1272707--1272895	69	2.7	69	77	8	206	44	2	6	46	1.42
1274293--1274331	20	2.0	20	90	5	62	12	2	0	84	0.72
1274361--1274398	19	2.0	19	85	10	51	26	5	2	65	1.27
1278069--1278114	21	2.2	21	96	0	83	36	13	23	26	1.91
1278492--1278541	17	3.0	17	77	14	59	64	0	6	30	1.18
1281395--1281453	29	2.0	29	100	0	118	23	13	13	49	1.78
1286079--1286134	29	1.9	29	100	0	112	25	14	12	48	1.78
1296035--1296077	22	2.0	22	95	0	77	46	16	4	32	1.67
1321797--1321836	20	2.0	20	100	0	80	25	10	45	20	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1326349--1326408	2	30.5	2	96	3	113	48	0	0	51	1.00
1329447--1329599	76	2.0	76	100	0	306	22	27	24	26	2.00
1333160--1333227	26	2.6	26	95	0	118	47	17	11	23	1.81
1334523--1334864	170	2.0	172	98	1	670	26	15	21	37	1.93
1336733--1336759	10	2.7	10	100	0	54	11	11	18	59	1.60
1337122--1337190	34	2.1	32	84	7	86	36	4	17	42	1.69
1341069--1341098	16	1.9	15	93	6	51	0	30	0	70	0.88
1343028--1343104	34	2.2	34	84	6	93	51	3	27	16	1.62
1352527--1352585	23	2.7	23	86	5	86	30	22	27	20	1.98
1352587--1352628	21	2.0	21	95	0	75	38	28	11	21	1.89
1353191--1353335	54	2.7	53	81	9	157	26	22	18	32	1.97
1353305--1353383	20	3.9	21	75	14	76	26	29	13	30	1.94
1361808--1362679	157	5.4	155	77	10	749	29	16	5	49	1.67
1361814--1362674	331	2.7	313	79	9	903	29	16	5	49	1.67
1366115--1366154	21	1.9	21	85	10	55	37	7	17	37	1.78
1367453--1367514	26	2.5	25	79	12	74	61	1	11	25	1.39
1367453--1367516	25	2.5	26	75	12	71	60	1	10	26	1.39
1367545--1367579	17	2.0	18	88	5	54	62	0	2	34	1.10
1375777--1375828	23	2.3	23	96	0	95	25	21	11	42	1.86
1381614--1381646	15	2.2	15	94	0	57	9	24	12	54	1.66
1383714--1383740	12	2.2	12	100	0	54	40	0	0	59	0.98
1385476--1385925	226	2.0	227	98	1	875	27	20	16	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1394250--1394320	20	3.5	20	90	0	115	39	19	15	25	1.91
1396526--1396570	21	2.1	21	95	0	81	35	35	6	22	1.80
1412310--1412399	19	4.7	19	85	0	135	32	16	27	23	1.96
1412675--1412700	13	2.0	13	100	0	52	38	0	15	46	1.46
1416616--1416667	19	2.7	19	96	0	95	32	17	28	21	1.96
1421595--1421655	30	2.0	30	84	12	81	39	6	21	32	1.79
1425947--1425998	18	2.9	18	97	0	95	17	23	30	28	1.97
1430092--1430170	3	25.7	3	89	2	113	36	0	0	63	0.95
1430299--1430365	26	2.6	26	92	0	116	19	40	19	20	1.92
1431361--1431442	32	2.6	33	78	19	95	30	4	2	62	1.29
1431374--1431443	30	2.4	30	83	11	83	31	4	2	61	1.30
1432504--1432542	18	2.2	18	95	0	69	28	7	7	56	1.55
1433847--1433893	22	2.1	22	100	0	94	38	12	23	25	1.90
1433901--1433985	43	2.0	41	84	8	109	31	9	24	34	1.87
1436941--1436980	9	4.6	9	81	6	55	80	0	20	0	0.72
1436941--1436980	18	2.3	18	91	4	64	80	0	20	0	0.72
1437105--1437160	27	2.0	28	96	3	105	39	19	23	17	1.92
1437506--1437566	32	1.9	32	93	0	104	44	19	14	21	1.86
1440036--1440208	75	2.3	75	89	0	265	31	15	24	28	1.96
1442170--1442790	45	13.8	45	92	0	1028	23	22	19	35	1.96
1442640--1442709	20	3.0	25	60	20	60	22	21	22	32	1.98
1442909--1442965	3	19.0	3	81	0	69	31	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1444129--1444210	32	2.6	33	78	19	95	30	4	2	62	1.29
1444142--1444211	30	2.4	30	83	11	83	31	4	2	61	1.30
1448249--1448292	25	1.9	24	82	17	58	50	9	0	40	1.34
1455519--1455581	31	2.0	31	84	6	83	52	3	1	42	1.27
1458708--1458751	14	2.8	16	80	16	56	65	0	4	29	1.12
1458803--1458848	18	2.6	18	77	16	60	60	8	2	28	1.38
1461498--1461641	69	2.1	70	90	3	229	26	15	18	39	1.90
1463402--1463967	200	2.8	198	82	3	611	35	20	11	32	1.89
1464599--1464711	50	2.3	50	84	0	145	14	35	28	22	1.93
1468583--1468626	15	2.9	15	82	0	61	20	36	15	27	1.93
1468993--1469028	18	2.0	18	88	0	54	22	16	25	36	1.94
1470490--1470711	111	2.0	111	94	0	390	45	10	8	35	1.70
1470836--1470876	10	4.1	10	84	12	57	39	0	29	31	1.57
1471687--1471717	14	2.1	15	94	5	55	38	3	9	48	1.52
1474636--1474980	172	2.0	172	97	2	658	30	20	21	28	1.98
1476461--1476507	19	2.6	18	86	10	60	27	27	17	27	1.97
1476495--1476600	45	2.3	45	83	4	124	29	19	19	31	1.97
1487355--1487402	26	1.9	24	87	8	69	56	0	4	39	1.19
1491289--1491420	65	2.0	66	94	1	230	36	31	3	28	1.75
1495083--1495156	33	2.2	33	95	0	130	17	20	20	41	1.90
1495174--1495239	23	2.9	23	97	0	123	31	19	22	25	1.98
1498661--1498725	13	5.0	13	86	0	94	29	23	16	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1498661--1498725	26	2.5	26	97	0	121	29	23	16	30	1.96
1502945--1502982	17	2.3	17	86	4	51	2	21	2	73	1.07
1517167--1517209	18	2.4	18	88	0	59	23	6	0	69	1.12
1522085--1522137	26	2.0	27	88	3	81	22	18	20	37	1.94
1524165--1524215	20	2.5	20	83	3	66	7	35	37	19	1.81
1525891--1525934	18	2.4	18	92	0	70	22	20	13	43	1.87
1529707--1529909	101	2.0	101	100	0	406	31	21	20	26	1.98
1530950--1531002	20	2.7	20	75	0	61	39	16	9	33	1.81
1530915--1531002	40	2.2	40	85	0	113	32	20	11	35	1.88
1540913--1541026	51	2.2	51	92	3	185	11	10	49	28	1.72
1543469--1543577	55	2.0	55	96	0	200	49	5	5	39	1.49
1547124--1547230	51	2.1	51	92	0	178	27	10	21	41	1.85
1548193--1548268	21	3.6	21	77	10	73	28	17	23	30	1.97
1548722--1548797	21	3.6	21	77	10	73	28	17	23	30	1.97
1547800--1548845	529	2.0	529	98	0	2011	34	8	24	33	1.85
1554270--1554361	23	4.0	23	80	7	89	19	23	22	33	1.97
1554331--1554389	24	2.5	23	83	2	82	18	25	23	32	1.97
1561205--1561260	23	2.4	23	82	5	69	14	25	23	37	1.92
1561251--1561309	24	2.5	23	81	8	66	22	23	20	33	1.97
1561986--1562102	4	29.8	4	68	19	50	73	0	3	22	1.03
1561985--1562075	13	6.8	13	74	13	69	76	1	4	17	1.00
1562002--1562079	25	3.1	24	72	22	63	74	1	5	19	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1561985--1562104	17	7.1	16	69	20	59	74	0	3	21	1.02
1561994--1562107	50	2.3	51	80	8	128	72	0	4	21	1.07
1562047--1562171	43	3.0	41	79	16	141	64	0	2	32	1.12
1562019--1562184	15	11.7	15	68	23	87	65	1	1	30	1.13
1562073--1562169	2	49.5	2	73	15	51	60	1	2	36	1.15
1563293--1563370	39	2.0	39	89	0	120	24	7	24	43	1.80
1563293--1563382	39	2.4	39	85	7	116	27	8	22	41	1.83
1563443--1563545	36	2.8	37	91	2	181	35	12	22	29	1.91
1563583--1563822	102	2.4	102	89	2	365	37	12	17	32	1.88
1563712--1563798	37	2.4	36	84	1	102	39	14	20	25	1.91

Tables:   1   2   3   4   5   6   7   8   9