genome.fa.s9585.2.7.7.80.10.50.1000.7.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: VEPZ01009585.1 Hibiscus syriacus cultivar Beakdansim tig00116962_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8285662

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   

This is table  7  of  35  ( 4106 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)
1222721--1222904	65	2.8	63	79	14	180	26	17	23	32	1.97
1223158--1223213	2	29.0	2	86	13	82	51	0	1	46	1.11
1223466--1223507	18	2.3	18	95	0	75	23	19	33	23	1.97
1227825--1227947	18	6.8	18	84	3	149	16	24	30	29	1.96
1227825--1227947	54	2.3	54	86	6	169	16	24	30	29	1.96
1227927--1227979	23	2.2	24	86	6	72	24	16	24	33	1.96
1228250--1228307	18	3.2	18	97	0	107	32	5	24	37	1.77
1228376--1228408	2	17.0	2	93	6	59	51	0	0	48	1.00
1229152--1229208	24	2.4	24	96	0	105	19	26	28	26	1.99
1232934--1232994	23	2.7	23	89	0	95	29	24	27	18	1.98
1233238--1233290	24	2.2	24	83	9	65	45	22	3	28	1.70
1234109--1234169	22	2.7	23	75	14	65	44	19	1	34	1.61
1238321--1238381	23	2.7	23	82	10	88	29	24	26	19	1.99
1239165--1239191	2	13.5	2	100	0	54	51	0	0	48	1.00
1239583--1239630	24	1.9	26	87	8	73	45	14	10	29	1.78
1245220--1245276	19	2.8	21	81	7	73	15	26	33	24	1.95
1248875--1248918	23	2.0	23	81	4	54	50	11	2	36	1.51
1254606--1254685	20	3.8	21	76	12	83	26	32	25	16	1.96
1254647--1254685	21	1.9	21	89	5	62	28	35	25	10	1.89
1262273--1262301	14	2.1	14	93	6	51	34	10	0	55	1.34
1262628--1262672	23	2.0	23	81	0	54	33	22	24	20	1.97
1262642--1262694	23	2.3	23	90	0	79	28	20	30	20	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1266756--1266865	36	3.1	36	77	2	132	20	20	17	41	1.90
1268082--1268110	3	9.7	3	100	0	58	0	34	0	65	0.93
1270942--1271025	39	2.2	39	93	0	141	39	41	9	9	1.70
1280512--1280549	20	1.9	20	88	0	58	13	26	36	23	1.91
1284937--1284976	19	2.1	19	100	0	80	35	15	15	35	1.88
1297211--1297344	20	6.7	20	83	5	155	35	28	18	17	1.94
1297724--1297794	33	2.2	33	92	0	115	12	23	15	47	1.80
1297874--1297950	21	3.7	21	81	6	102	48	16	22	12	1.80
1297935--1297991	14	3.7	14	75	20	60	43	22	24	8	1.81
1297928--1298005	33	2.4	33	95	0	138	47	21	21	8	1.78
1298008--1298089	33	2.5	33	95	0	155	9	21	19	48	1.77
1298025--1298081	14	3.7	14	70	20	51	8	22	22	45	1.80
1298066--1298130	21	3.1	21	77	4	87	12	26	13	47	1.78
1298065--1298128	20	3.2	20	77	4	83	14	25	14	46	1.81
1299814--1300036	93	2.4	93	97	0	419	22	13	18	44	1.85
1300134--1300243	52	2.1	53	86	1	150	47	27	16	9	1.76
1300201--1300227	14	1.9	14	100	0	54	48	29	14	7	1.71
1300166--1300243	19	4.4	19	79	15	94	48	28	15	7	1.72
1300239--1300392	19	8.6	19	73	14	130	11	20	22	45	1.83
1300242--1300374	33	3.9	33	83	9	167	11	21	21	45	1.82
1302319--1302354	14	2.6	14	95	0	63	33	0	22	44	1.53
1302461--1302558	19	5.4	19	84	13	143	45	17	22	14	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1302461--1302577	53	2.2	53	98	1	227	44	17	23	13	1.85
1302567--1302738	19	9.7	19	74	21	176	14	22	18	44	1.85
1302573--1302710	53	2.6	53	98	1	267	13	23	16	45	1.83
1302644--1302771	34	3.8	34	86	6	188	14	21	19	45	1.85
1302573--1302771	87	2.3	85	78	13	226	14	22	18	45	1.85
1305012--1305103	20	4.6	20	88	0	130	20	15	22	41	1.90
1305012--1305240	40	5.7	40	85	5	214	17	16	25	39	1.91
1305025--1305162	20	6.9	20	83	8	158	20	17	26	36	1.94
1305025--1305202	60	3.0	60	80	4	200	18	17	25	38	1.92
1305167--1305240	20	3.7	20	85	7	114	12	18	24	44	1.84
1305603--1305670	16	4.2	16	72	9	59	52	22	13	11	1.72
1305609--1305669	32	1.9	31	86	3	86	54	19	13	13	1.71
1305748--1305781	17	2.0	17	100	0	68	47	0	11	41	1.40
1305795--1305850	18	3.1	17	73	17	51	57	0	0	42	0.99
1305938--1306026	24	3.5	24	66	16	63	62	2	3	31	1.23
1306726--1306756	16	1.9	16	100	0	62	35	45	6	12	1.68
1311547--1311592	15	3.1	15	78	6	58	34	21	17	26	1.95
1321396--1321430	2	17.5	2	100	0	70	51	0	0	48	1.00
1330331--1330370	19	2.2	18	90	4	62	15	0	32	52	1.43
1337797--1337844	24	2.0	24	88	8	71	35	10	0	54	1.35
1344842--1344889	2	26.0	2	80	16	59	50	0	0	50	1.00
1347437--1347464	2	14.0	2	100	0	56	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1351286--1351326	8	5.2	8	82	5	57	34	0	29	36	1.58
1351406--1351880	128	3.7	128	94	0	833	20	24	21	33	1.97
1352650--1352809	63	2.5	63	81	7	180	34	18	20	26	1.96
1353496--1353591	31	3.1	30	75	12	88	27	18	20	33	1.96
1353547--1353646	30	3.3	30	85	1	110	23	18	24	35	1.96
1356029--1356097	2	34.5	2	100	0	138	50	0	0	49	1.00
1357031--1357191	64	2.5	63	84	7	182	34	18	20	26	1.95
1357878--1357973	31	3.1	30	75	12	88	27	18	20	33	1.96
1358780--1359303	128	4.1	128	94	1	897	21	23	21	33	1.98
1359699--1359804	34	3.1	34	83	1	124	36	2	4	55	1.35
1360335--1360417	21	4.0	20	87	3	85	21	25	32	20	1.98
1362176--1362255	34	2.4	33	81	8	92	60	1	0	38	1.05
1363661--1363703	22	1.9	23	85	4	61	46	2	2	48	1.27
1369108--1369149	18	2.3	19	88	12	61	42	7	7	42	1.59
1371417--1371459	17	2.6	16	86	13	61	34	9	20	34	1.85
1371426--1371460	17	2.1	17	100	0	70	34	11	25	28	1.91
1371810--1371865	21	2.8	20	78	10	69	21	21	21	35	1.96
1371809--1371897	42	2.2	40	80	10	99	25	22	19	32	1.97
1372475--1372529	6	9.2	6	95	0	101	0	14	49	36	1.44
1372618--1372794	42	4.3	42	80	8	227	37	22	19	20	1.94
1372615--1372794	21	8.7	19	77	12	135	36	22	19	21	1.95
1378679--1378754	18	4.4	17	68	18	50	39	2	19	38	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1379779--1379826	24	2.0	24	88	8	71	33	20	18	27	1.96
1380008--1380061	28	1.9	28	92	0	90	29	25	11	33	1.91
1382779--1382827	19	2.7	17	84	9	53	26	20	28	24	1.99
1382796--1382903	45	2.4	46	89	4	157	31	20	20	27	1.97
1384154--1384312	29	5.5	28	92	1	201	32	3	16	47	1.64
1384154--1384312	86	1.8	86	86	2	230	32	3	16	47	1.64
1391516--1391551	17	2.1	18	89	5	56	16	44	25	13	1.85
1391550--1391606	29	2.0	29	92	0	96	28	3	21	47	1.67
1393590--1393618	14	2.0	15	93	6	51	62	20	3	13	1.46
1396535--1396570	3	12.3	3	94	5	65	30	0	0	69	0.89
1398844--1398957	23	5.0	23	91	0	165	25	25	28	20	1.99
1398974--1399186	103	2.1	103	97	0	399	36	23	13	26	1.92
1400558--1400617	20	2.9	21	87	7	95	18	25	25	31	1.97
1402798--1402831	16	2.1	16	100	0	68	29	14	23	32	1.94
1411318--1411344	14	1.9	14	100	0	54	37	22	18	22	1.95
1411656--1412194	106	5.0	106	91	1	781	35	22	18	23	1.96
1413644--1413669	2	13.0	2	100	0	52	50	0	0	50	1.00
1414766--1414864	23	4.5	22	78	8	94	26	25	22	26	2.00
1414765--1414886	23	5.6	21	74	12	86	26	22	22	27	1.99
1414792--1414886	21	4.4	21	76	9	77	24	22	24	29	1.99
1420749--1420815	35	1.9	35	87	6	100	38	1	19	40	1.61
1427027--1427065	15	2.6	15	88	8	53	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1427027--1427070	15	3.0	14	83	9	52	47	0	0	52	1.00
1427074--1427123	18	2.8	18	81	6	57	46	4	2	48	1.32
1435517--1435606	42	2.1	42	97	0	171	47	5	10	36	1.60
1445921--1445958	15	2.4	16	86	13	60	34	2	0	63	1.09
1447406--1447444	18	2.2	18	95	4	71	10	17	5	66	1.39
1450265--1450293	12	2.4	12	100	0	58	17	6	37	37	1.76
1454517--1454562	17	2.7	18	86	10	69	17	2	2	78	0.96
1456601--1456691	40	2.3	40	86	3	121	29	10	17	41	1.84
1458612--1458670	31	2.0	30	86	6	84	32	8	23	35	1.85
1461498--1461555	18	3.4	18	73	17	52	65	6	1	25	1.27

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35