genome.fa.s9610.2.7.7.80.10.50.1000.7.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: 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  7  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)
1315896--1315932	17	2.2	17	86	13	51	37	8	0	54	1.30
1315942--1315987	15	3.1	15	84	6	58	60	0	2	36	1.09
1318424--1318472	16	2.9	18	70	14	50	20	4	12	63	1.45
1320018--1320090	32	2.4	30	84	8	94	75	0	10	13	1.05
1320028--1320066	14	2.8	15	88	11	57	76	0	10	12	1.01
1320135--1320163	2	14.5	2	100	0	58	51	0	0	48	1.00
1320154--1320229	38	2.1	38	85	9	104	56	7	5	30	1.50
1321314--1321434	64	1.9	65	82	1	154	28	17	24	29	1.97
1321373--1321410	19	2.0	20	94	5	69	18	21	28	31	1.97
1321330--1321492	65	2.5	65	83	6	208	26	15	26	31	1.96
1321440--1321490	19	2.7	19	85	8	70	25	15	35	23	1.94
1321334--1321541	65	3.2	63	78	14	201	26	16	25	31	1.97
1327934--1327973	21	1.9	21	85	10	55	35	10	2	52	1.48
1329898--1330078	64	2.8	64	83	2	220	27	17	26	28	1.98
1330026--1330076	19	2.7	19	85	8	70	25	15	35	23	1.94
1329920--1330127	65	3.2	64	81	12	228	27	17	25	30	1.97
1330407--1330485	2	39.5	2	100	0	158	50	0	0	49	1.00
1331860--1332391	106	5.0	106	88	4	752	22	17	23	36	1.95
1333022--1333106	37	2.3	37	81	4	91	42	15	16	25	1.87
1334909--1334949	8	5.2	8	80	16	50	2	17	2	78	0.98
1334907--1334949	16	2.8	15	89	6	68	2	16	2	79	0.95
1339265--1339323	14	4.3	14	77	10	59	74	1	8	15	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1339390--1339466	40	1.9	39	87	7	111	58	5	3	32	1.38
1339633--1339681	23	2.1	23	84	0	62	73	2	2	22	1.04
1339751--1339784	2	17.0	2	100	0	68	50	0	0	50	1.00
1340417--1340451	14	2.5	14	95	0	61	5	17	31	45	1.71
1348632--1348662	2	15.5	2	100	0	62	48	0	0	51	1.00
1352213--1352249	17	2.3	16	90	9	58	18	0	27	54	1.44
1355245--1355287	20	2.1	21	95	4	79	11	13	0	74	1.07
1362233--1362283	24	2.2	23	80	10	59	43	0	0	56	0.99
1366781--1366818	12	3.2	12	85	7	60	57	0	0	42	0.98
1369812--1369852	8	5.2	8	82	5	57	34	0	29	36	1.58
1369920--1370397	126	3.8	126	98	0	913	22	25	19	32	1.97
1370785--1370884	33	3.0	34	83	2	139	39	3	4	54	1.35
1371404--1371495	21	4.4	21	91	5	125	20	27	33	18	1.96
1371501--1371548	21	2.3	21	85	0	60	22	12	39	25	1.89
1373320--1373359	19	2.0	19	85	9	53	65	2	0	32	1.06
1373301--1373374	33	2.3	31	80	11	78	64	5	0	29	1.15
1391539--1391617	20	3.8	20	70	18	63	39	1	2	56	1.21
1391913--1391977	2	32.5	2	100	0	130	49	0	0	50	1.00
1406787--1406819	5	6.6	5	96	0	57	39	15	0	45	1.46
1406887--1406975	33	2.7	32	81	8	99	29	1	2	67	1.10
1406884--1406966	11	7.6	11	73	23	61	30	1	2	66	1.12
1406886--1406970	12	7.7	12	73	11	67	30	1	2	65	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1411818--1412586	176	4.4	177	90	1	1195	29	19	18	32	1.96
1411818--1412586	353	2.2	353	90	1	1222	29	19	18	32	1.96
1413234--1413307	22	3.4	22	85	9	98	36	13	12	37	1.82
1413249--1413315	22	3.0	22	89	4	100	38	11	13	35	1.82
1413677--1413838	54	3.0	54	88	0	207	25	20	14	38	1.91
1417553--1417610	24	2.5	22	73	18	55	39	3	20	36	1.70
1423331--1423510	90	2.0	90	91	4	292	32	10	19	38	1.85
1424716--1424788	18	3.9	18	80	7	92	20	20	30	28	1.98
1426610--1426688	27	3.0	26	72	5	68	49	10	21	18	1.77
1435440--1435869	55	8.0	55	81	7	399	29	24	16	28	1.97
1435441--1435879	106	4.1	105	79	9	394	29	24	16	29	1.97
1435440--1435867	161	2.6	159	87	5	556	29	24	16	28	1.97
1435886--1435958	37	2.0	37	100	0	146	21	23	19	35	1.96
1437220--1437281	14	4.3	14	73	18	56	6	17	1	74	1.11
1437288--1437330	20	2.2	20	88	12	63	9	18	2	69	1.26
1437250--1437330	19	4.4	19	73	22	59	8	18	1	71	1.18
1437219--1437356	15	8.3	16	68	24	65	6	18	1	73	1.13
1446610--1446699	45	2.0	47	91	4	148	41	22	6	30	1.79
1450894--1450939	7	6.4	7	80	14	58	71	2	0	26	0.97
1451994--1452047	2	27.0	2	100	0	108	50	0	0	50	1.00
1452439--1452471	15	2.1	16	88	5	50	39	3	0	57	1.14
1461960--1462029	33	2.1	33	89	5	106	41	35	10	12	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1463216--1463255	2	20.0	2	100	0	80	50	0	0	50	1.00
1463289--1463338	21	2.5	20	80	6	57	56	0	0	44	0.99
1464138--1464176	14	2.8	13	88	11	51	23	2	2	71	1.10
1464136--1464178	18	2.5	17	81	7	52	25	2	2	69	1.12
1464374--1464398	2	12.5	2	100	0	50	48	0	0	52	1.00
1464660--1464693	9	3.8	9	92	7	52	20	2	0	76	0.92
1464660--1464694	13	2.6	14	90	4	54	20	2	0	77	0.90
1466553--1466597	22	2.2	20	84	8	54	33	17	4	44	1.69
1467735--1467789	19	2.8	19	81	10	58	80	5	12	1	0.97
1467744--1467790	20	2.3	21	85	3	60	80	6	10	2	0.96
1468391--1468441	22	2.3	22	96	0	93	35	27	11	25	1.91
1468841--1468876	18	2.0	18	88	0	54	19	8	30	41	1.81
1469304--1469637	36	9.5	35	74	12	202	26	18	14	39	1.90
1469314--1469487	72	2.4	72	86	6	230	26	19	14	39	1.91
1469360--1469637	72	3.9	72	73	10	250	26	19	14	38	1.90
1469396--1469700	138	2.2	137	82	2	369	27	20	13	38	1.90
1469612--1469768	68	2.4	68	85	3	212	32	22	9	35	1.86
1470373--1471345	105	9.3	105	90	3	1401	33	26	18	21	1.96
1470373--1471345	205	4.6	209	90	3	1433	33	26	18	21	1.96
1470373--1471345	310	3.1	310	91	2	1475	33	26	18	21	1.96
1472352--1472390	14	2.8	13	88	11	51	23	2	2	71	1.10
1472350--1472392	18	2.5	17	81	7	52	25	2	2	69	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1472582--1472608	2	13.5	2	100	0	54	48	0	0	51	1.00
1472867--1472900	9	3.8	9	92	7	52	20	2	0	76	0.92
1472867--1472901	13	2.6	14	90	4	54	20	2	0	77	0.90
1473998--1474073	29	2.6	29	97	0	143	40	5	22	31	1.76
1474816--1474874	24	2.4	25	77	8	68	35	1	5	57	1.31
1482734--1482779	21	2.2	21	92	0	74	23	26	13	36	1.91
1482744--1482785	21	2.0	21	90	0	66	30	26	9	33	1.88
1482775--1482817	20	2.2	20	87	8	61	37	23	16	23	1.94
1482819--1482982	20	8.1	20	76	14	126	42	23	14	20	1.88
1482770--1482961	100	1.9	100	90	0	303	42	23	14	20	1.88
1482809--1482982	80	2.2	79	81	11	194	41	22	14	21	1.89
1482867--1482982	60	1.9	60	83	11	148	40	23	14	21	1.90
1482829--1483041	40	5.3	40	73	13	145	39	23	12	24	1.89
1482869--1483040	60	2.9	58	78	13	147	37	23	12	26	1.91
1482829--1483001	80	2.2	80	81	10	219	41	23	13	22	1.89
1482949--1483040	19	4.7	19	81	8	96	34	22	10	31	1.89
1483197--1483234	16	2.5	15	84	12	51	28	5	0	65	1.14
1483976--1484029	24	2.2	24	90	0	81	22	18	18	40	1.91
1484204--1484239	9	4.0	9	86	13	56	77	0	22	0	0.76
1484205--1484236	12	2.7	12	95	0	55	78	0	21	0	0.76
1484263--1484320	24	2.4	24	94	0	98	37	12	27	22	1.89
1486333--1486368	18	2.0	18	88	0	54	55	22	2	19	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1486593--1486631	14	2.9	14	82	17	55	43	30	17	7	1.77
1486885--1486918	14	2.4	14	95	0	59	50	17	0	32	1.47
1487734--1487787	24	2.2	24	90	0	81	22	18	18	40	1.91
1490056--1490091	18	2.0	18	88	0	54	55	22	2	19	1.56
1490316--1490354	14	2.9	14	82	17	55	43	30	17	7	1.77
1490603--1490636	14	2.4	14	100	0	68	47	20	0	32	1.51
1490538--1490692	79	2.0	77	91	5	249	49	18	1	30	1.55
1492039--1492155	21	5.7	21	72	9	89	26	18	34	20	1.96
1494346--1494379	14	2.4	14	90	0	59	8	11	26	52	1.67
1494742--1494795	22	2.5	22	81	0	72	20	18	40	20	1.91

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