genome.fa.s8280.2.7.7.80.10.50.1000.6.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: VEPZ01008280.1 Hibiscus syriacus cultivar Beakdansim tig00110940_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3557051

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

This is table  6  of  17  ( 1944 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)
1291893--1291935	15	2.8	15	82	3	50	62	0	2	34	1.08
1291970--1292017	24	2.0	24	95	0	87	41	10	6	41	1.64
1291975--1292027	24	2.2	24	82	0	61	49	5	7	37	1.55
1293372--1293439	34	2.2	31	82	12	77	32	11	7	48	1.67
1293384--1293451	34	2.0	34	94	5	120	30	17	8	42	1.80
1303853--1304016	57	2.8	58	74	10	136	17	16	9	56	1.67
1303853--1304022	30	5.8	29	77	6	155	17	15	10	57	1.65
1304394--1304424	5	6.2	5	92	0	53	16	0	3	80	0.83
1304982--1305099	59	2.0	59	100	0	236	22	10	16	50	1.75
1307159--1307239	40	2.0	40	97	0	153	29	24	13	32	1.94
1314621--1314876	20	12.6	20	74	11	146	38	24	18	19	1.93
1314682--1314873	41	4.7	40	86	3	251	38	23	18	19	1.93
1315433--1315483	20	2.5	20	87	0	66	54	21	9	13	1.67
1315480--1315547	33	2.1	33	88	0	100	45	23	20	10	1.81
1315543--1315593	19	2.7	19	90	0	75	11	19	23	45	1.83
1315591--1315646	20	2.8	20	81	10	78	16	25	19	39	1.91
1317352--1317731	94	4.1	94	93	1	629	21	12	18	46	1.82
1317779--1317903	19	6.7	19	72	13	89	44	22	19	13	1.85
1317851--1317913	19	3.3	18	80	12	65	42	23	17	15	1.88
1317910--1317974	19	3.7	19	68	19	59	10	24	20	44	1.83
1317913--1317987	33	2.3	33	90	0	123	10	25	20	44	1.83
1320064--1320211	33	4.3	33	78	11	161	14	22	18	43	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1320060--1320169	20	5.9	19	74	13	104	13	22	20	43	1.86
1320156--1320183	14	2.0	14	100	0	56	14	21	21	42	1.88
1323657--1323702	21	2.2	21	88	0	65	36	17	28	17	1.92
1324033--1324261	72	3.2	71	87	4	302	44	10	11	33	1.75
1324338--1324406	19	3.6	19	88	2	84	31	18	13	36	1.89
1324494--1324934	54	8.3	54	77	11	399	26	13	17	42	1.86
1324501--1324863	105	3.4	105	79	11	323	27	13	16	42	1.86
1324495--1324958	107	4.3	106	80	7	374	26	14	16	42	1.86
1324495--1324976	161	3.0	159	80	9	480	27	14	16	42	1.86
1325433--1325699	107	2.5	107	82	3	315	39	11	9	39	1.74
1339591--1339639	25	2.0	25	87	0	71	53	0	16	30	1.43
1356247--1356332	30	2.8	31	79	10	97	50	3	3	43	1.36
1356327--1356371	11	4.4	11	83	16	69	37	0	8	53	1.32
1356246--1356371	50	2.5	51	80	11	145	45	2	5	46	1.39
1356243--1356362	2	58.5	2	71	14	75	46	2	5	45	1.38
1356889--1356947	30	1.9	30	86	6	82	44	8	5	42	1.57
1356933--1356980	11	4.5	11	76	10	55	47	10	4	37	1.57
1356934--1356987	20	2.7	20	82	0	63	48	9	3	38	1.53
1356934--1357053	62	2.0	60	85	9	163	45	7	5	41	1.56
1357126--1357223	13	7.5	13	68	13	58	46	7	3	42	1.46
1357203--1357312	18	6.3	18	74	15	88	50	8	2	39	1.47
1357219--1357336	51	2.3	52	84	7	161	46	8	5	39	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1357398--1357534	61	2.2	61	92	0	220	47	8	8	35	1.64
1357777--1357981	114	1.8	111	83	8	272	34	28	4	32	1.77
1358175--1358215	6	6.8	6	82	0	55	48	43	2	4	1.37
1358647--1358689	2	21.5	2	100	0	86	48	0	0	51	1.00
1361239--1361298	23	2.6	23	83	0	84	18	25	26	30	1.98
1363815--1363852	16	2.4	16	90	0	58	31	0	28	39	1.57
1366595--1366655	23	2.7	23	86	0	95	16	24	27	31	1.96
1367058--1367099	12	3.7	11	81	15	50	33	0	14	52	1.42
1368108--1368158	20	2.6	20	87	3	68	35	5	19	39	1.76
1368223--1368283	20	3.0	20	87	0	86	36	19	13	31	1.90
1369537--1369599	19	3.4	18	79	14	58	52	3	12	31	1.55
1382801--1382832	11	2.9	11	95	0	55	9	18	46	25	1.79
1383815--1384364	139	4.0	139	86	3	691	29	13	14	42	1.84
1383858--1384424	278	2.0	277	82	5	691	29	13	14	42	1.84
1392774--1392887	36	3.1	36	74	12	106	33	16	10	39	1.83
1392768--1392933	73	2.3	73	80	11	187	33	16	10	39	1.83
1392911--1393230	55	6.0	52	77	6	266	24	20	13	41	1.88
1392921--1393182	53	4.9	52	75	5	184	24	21	12	40	1.89
1392906--1393149	52	4.6	52	78	5	175	23	22	13	40	1.90
1393319--1393451	35	3.8	34	75	10	117	25	18	9	45	1.80
1393319--1393450	70	1.9	70	85	6	187	25	18	9	45	1.81
1393317--1393451	34	3.9	34	72	11	103	26	18	9	45	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1395475--1395566	23	4.0	23	82	0	94	35	22	23	17	1.95
1398589--1398629	12	3.3	13	76	10	50	19	0	0	80	0.71
1398589--1398628	18	2.2	18	90	0	62	20	0	0	80	0.72
1399878--1400015	35	3.9	36	75	9	113	39	15	15	28	1.89
1402416--1402619	31	6.8	31	90	6	287	36	20	18	25	1.95
1402422--1402619	59	3.3	60	87	6	287	35	20	18	25	1.95
1402416--1402619	90	2.3	91	89	2	315	36	20	18	25	1.95
1403846--1403916	31	2.3	31	80	11	83	38	22	7	32	1.81
1405736--1405798	7	8.9	7	81	13	67	1	20	0	77	0.85
1405731--1405804	20	3.4	22	81	14	100	1	20	0	78	0.83
1405716--1405800	34	2.4	34	84	11	93	2	18	0	78	0.85
1405716--1405804	16	5.4	16	75	20	78	2	19	0	78	0.85
1408263--1408404	24	5.9	24	90	3	207	39	20	14	26	1.90
1410837--1411150	159	2.0	157	97	2	596	34	18	19	28	1.95
1411354--1411413	29	2.0	30	93	3	104	31	20	13	35	1.91
1411479--1411663	31	6.0	31	91	0	289	34	20	18	26	1.96
1412676--1412710	18	1.9	18	94	0	61	51	20	2	25	1.61
1412912--1412973	32	2.0	32	90	9	101	37	25	6	30	1.81
1414480--1414527	20	2.4	20	100	0	96	22	20	31	25	1.98
1418511--1418623	56	2.0	56	100	0	226	30	23	21	24	1.99
1419875--1419955	3	27.7	3	84	9	105	35	2	0	61	1.09
1419954--1419998	20	2.3	19	84	3	54	62	2	0	35	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1425124--1425218	24	4.0	24	75	5	84	24	11	15	48	1.78
1428750--1428785	18	2.0	18	88	0	54	11	38	11	38	1.76
1432362--1432398	16	2.2	17	86	13	51	62	2	0	35	1.10
1433173--1433198	13	2.0	13	100	0	52	69	0	30	0	0.89
1433464--1433488	3	8.3	3	100	0	50	68	0	32	0	0.90
1433167--1433751	291	2.0	293	97	2	1124	33	16	28	21	1.95
1441481--1441511	16	2.0	16	93	6	55	51	0	9	38	1.35
1443145--1443207	31	2.2	28	81	15	76	30	25	22	22	1.99
1445964--1445996	13	2.5	13	100	0	66	33	27	27	12	1.92
1447825--1447902	37	2.1	37	85	0	102	46	12	7	33	1.71
1448328--1448427	10	9.7	10	69	21	55	32	3	2	63	1.21
1448548--1448589	22	1.9	22	90	9	68	33	2	4	59	1.31
1448601--1448650	12	4.1	12	82	12	57	28	2	0	70	0.99
1448598--1448638	11	3.6	11	83	6	55	26	0	0	73	0.84
1448598--1448665	22	3.0	22	76	14	68	26	2	0	70	1.01
1450218--1450290	24	3.0	24	88	4	67	10	15	24	49	1.76
1450228--1450283	14	4.3	14	82	17	75	8	14	25	51	1.70
1450229--1450303	24	3.1	23	90	3	96	12	12	21	54	1.69
1451015--1451088	16	4.7	16	86	6	98	9	10	20	59	1.58
1451015--1451080	32	2.0	33	94	2	116	7	12	22	57	1.60
1454705--1454777	22	3.4	22	92	3	130	36	27	12	23	1.90
1454863--1454939	22	3.5	22	96	0	145	36	25	12	24	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1454678--1454998	158	2.0	163	96	3	607	35	27	12	24	1.91
1455905--1456200	106	2.8	106	90	0	450	36	25	15	22	1.94
1456022--1456370	169	2.1	169	92	2	594	33	24	16	25	1.96
1456128--1456272	63	2.3	63	87	2	220	32	23	16	27	1.96
1455917--1456484	275	2.1	274	91	0	929	34	25	17	23	1.96
1456191--1456918	106	6.9	106	92	0	1127	33	24	18	23	1.97
1457474--1457578	37	2.8	37	82	0	129	40	14	13	31	1.84
1457974--1458018	18	2.6	18	82	3	56	37	0	0	62	0.96
1457980--1458021	14	3.1	14	83	13	52	35	0	0	64	0.94
1457992--1458064	22	3.5	20	76	20	62	31	2	2	63	1.23

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