genome.fa.s8526.2.7.7.80.10.50.1000.6.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: VEPZ01008526.1 Hibiscus syriacus cultivar Beakdansim tig00111398_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3043201

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  6  of  12  ( 1346 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)
1300540--1300670	54	2.4	54	84	2	183	25	19	19	35	1.95
1300653--1300809	54	2.9	54	88	1	226	22	18	21	37	1.94
1300579--1300755	74	2.4	74	86	0	237	23	19	20	36	1.95
1303267--1303320	24	2.2	24	86	0	72	40	18	16	24	1.90
1304068--1304174	20	5.3	20	85	6	153	23	19	28	28	1.98
1304120--1304195	21	3.7	21	82	10	102	21	22	27	28	1.99
1304068--1304195	41	3.1	41	89	3	179	21	20	28	29	1.98
1304526--1304575	7	7.1	7	95	0	91	42	0	56	2	1.11
1317745--1317787	15	2.9	15	79	6	52	62	0	0	37	0.95
1324260--1324318	25	2.3	26	83	11	79	57	0	6	35	1.25
1326948--1326981	16	2.1	16	89	10	52	67	0	2	29	1.05
1327346--1327370	2	12.5	2	100	0	50	52	0	0	48	1.00
1330803--1330909	46	2.4	46	93	3	182	32	21	5	40	1.77
1330821--1330893	24	3.1	24	64	28	66	31	23	8	36	1.84
1331294--1331370	37	2.1	37	85	4	102	48	1	3	46	1.28
1331570--1331791	46	4.8	46	93	0	383	32	21	6	38	1.80
1331570--1331791	92	2.4	92	99	0	437	32	21	6	38	1.80
1331844--1331924	40	2.0	40	82	0	99	25	23	23	27	2.00
1332875--1332942	30	2.3	30	80	7	77	30	22	7	39	1.81
1338535--1338577	21	2.0	21	81	0	50	30	30	25	13	1.94
1339119--1339434	150	2.1	150	95	1	573	26	17	21	34	1.96
1339402--1339446	23	2.0	23	86	0	63	20	26	26	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1345480--1345522	21	2.0	21	81	0	50	30	30	25	13	1.94
1346064--1346379	150	2.1	150	94	1	564	26	17	21	34	1.95
1346347--1346391	23	2.0	23	86	0	63	20	26	26	26	1.99
1347630--1347817	60	3.1	59	79	8	218	32	22	5	39	1.76
1347949--1348127	60	3.0	60	79	7	184	41	6	19	31	1.77
1349349--1349373	11	2.3	11	100	0	50	28	8	0	64	1.22
1362951--1363013	23	2.7	23	90	0	90	20	28	25	25	1.99
1363191--1363227	16	2.2	18	85	9	51	32	0	21	45	1.52
1375569--1375648	40	2.0	40	95	0	142	47	15	16	21	1.82
1379164--1379489	124	2.6	124	93	0	537	36	15	12	35	1.85
1387726--1387753	7	4.0	7	100	0	56	42	14	14	28	1.84
1392215--1392244	12	2.4	13	94	5	53	3	43	0	53	1.17
1393777--1393827	18	2.8	18	77	14	50	37	5	11	45	1.65
1394430--1394997	282	2.0	282	91	0	920	30	15	16	37	1.90
1403612--1403642	16	1.9	16	93	0	53	29	19	6	45	1.75
1406036--1406065	14	2.1	14	100	0	60	23	20	0	56	1.42
1418357--1418514	21	7.8	20	70	7	77	37	24	17	19	1.93
1418482--1418792	20	15.5	20	81	6	79	34	26	19	20	1.96
1418482--1418871	40	9.7	40	87	2	439	35	25	18	20	1.95
1418520--1418871	20	17.6	19	85	5	398	34	25	18	21	1.96
1419548--1419594	24	2.0	24	87	8	69	25	14	21	38	1.92
1419769--1419793	12	2.1	12	100	0	50	72	0	28	0	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1422075--1422347	19	15.4	19	81	15	345	46	17	21	13	1.83
1422075--1422369	33	8.5	33	77	17	133	46	17	21	14	1.84
1422106--1422369	109	2.5	105	91	6	451	46	17	22	14	1.84
1422106--1422369	52	5.0	52	93	5	447	46	17	22	14	1.84
1422376--1422458	20	4.6	19	81	15	113	14	24	18	43	1.87
1422565--1422601	14	2.6	14	91	0	65	45	21	0	32	1.52
1424550--1424606	14	3.7	14	77	20	60	45	22	21	10	1.82
1424531--1424623	33	2.8	33	95	0	168	47	21	20	10	1.80
1424494--1424628	19	7.6	19	76	16	128	45	23	19	11	1.82
1424624--1424752	19	7.3	19	75	17	125	8	17	28	45	1.77
1424624--1424715	33	2.8	33	93	3	150	7	18	28	45	1.76
1424796--1425266	92	5.1	92	99	0	915	46	18	12	22	1.83
1426970--1427059	14	5.7	14	74	23	81	42	23	25	8	1.83
1426962--1427076	33	3.5	33	95	0	212	45	20	24	9	1.81
1426969--1427081	19	6.8	18	72	23	88	43	22	24	9	1.83
1427093--1427147	14	3.6	14	73	21	56	9	25	23	41	1.83
1427077--1427147	33	2.2	33	94	0	124	8	22	25	43	1.81
1427088--1427169	33	2.5	33	89	2	119	9	25	21	42	1.84
1427100--1427188	20	4.8	20	72	19	75	12	24	19	43	1.85
1427268--1427338	33	2.2	33	92	0	115	47	18	22	11	1.80
1427520--1427574	22	2.5	22	81	0	74	20	16	40	23	1.91
1427720--1427912	20	9.6	20	82	5	219	19	19	25	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1427720--1427912	60	3.2	60	83	0	251	19	19	25	35	1.95
1428778--1428863	35	2.5	35	84	0	100	40	20	1	37	1.61
1428832--1428874	21	2.0	21	100	0	86	46	13	0	39	1.44
1428997--1429030	16	2.0	18	88	11	54	26	2	5	64	1.30
1429499--1429746	130	1.9	130	93	0	424	37	12	14	35	1.84
1430985--1431232	130	1.9	130	93	0	424	36	14	12	36	1.84
1430999--1431263	130	2.0	129	81	4	309	39	12	12	34	1.82
1431558--1431620	28	2.3	27	78	8	63	46	1	3	49	1.27
1431700--1431733	16	2.0	18	88	11	54	64	5	2	26	1.30
1431854--1431896	21	2.0	21	95	0	77	39	0	11	48	1.40
1432017--1432332	157	2.0	157	98	0	605	29	13	20	36	1.92
1432487--1432519	15	2.1	16	88	5	50	54	3	0	42	1.15
1451709--1451783	31	2.4	31	88	0	114	41	14	9	34	1.78
1458436--1458602	80	2.1	80	89	2	255	35	12	16	35	1.87
1464551--1464583	2	16.5	2	100	0	66	51	0	0	48	1.00
1469997--1470022	2	13.0	2	100	0	52	50	0	0	50	1.00
1470455--1470481	6	4.5	6	100	0	54	18	0	37	44	1.50
1476778--1476845	27	2.6	27	95	4	122	41	16	11	30	1.84
1480498--1480605	27	4.1	27	93	2	184	40	14	13	30	1.85
1500340--1500475	24	5.7	24	92	3	184	36	22	18	23	1.95
1500340--1500470	12	10.8	13	64	15	75	36	22	17	22	1.95
1500340--1500476	72	1.9	72	89	0	211	35	21	18	24	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1520062--1520114	13	3.9	14	79	16	58	5	9	24	60	1.49
1520070--1520127	10	6.1	10	71	18	52	8	12	20	58	1.59
1522428--1522477	15	3.3	15	73	15	57	28	0	38	34	1.57
1522416--1522479	31	2.1	31	100	0	128	29	0	39	31	1.57
1522417--1522468	16	3.3	16	74	15	63	26	0	42	30	1.56
1525389--1525426	2	19.0	2	100	0	76	50	0	0	50	1.00
1525426--1525457	2	16.0	2	100	0	64	50	0	50	0	1.00
1528385--1528484	36	2.8	36	76	0	110	14	22	21	43	1.87
1528913--1528937	13	1.9	13	100	0	50	88	0	12	0	0.53
1531008--1531063	26	2.2	26	93	6	96	32	0	8	58	1.29
1531906--1531946	15	2.7	15	80	0	55	48	0	0	51	1.00
1534997--1535044	16	3.2	16	82	17	75	35	4	12	47	1.60
1534997--1535039	13	3.1	13	90	10	59	37	2	13	46	1.57
1540728--1540935	108	1.9	108	87	1	301	39	11	13	35	1.81
1540737--1540999	108	2.4	107	81	6	280	40	11	12	35	1.79
1541838--1542034	100	2.0	100	83	2	252	36	9	9	45	1.69
1541861--1542287	177	2.4	177	81	5	479	36	11	10	42	1.75
1542139--1542520	77	5.0	76	84	4	432	34	13	10	41	1.80
1542128--1542520	152	2.6	152	83	5	479	34	13	10	41	1.80
1543804--1543873	30	2.3	30	80	7	79	44	2	18	34	1.65
1546121--1546344	64	3.5	64	81	4	213	33	20	19	27	1.96
1547001--1547141	31	4.5	31	95	0	255	19	20	21	39	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1549238--1549319	39	2.1	39	90	0	128	19	9	30	40	1.84
1550155--1550339	76	2.4	76	83	8	225	35	12	9	43	1.74
1550257--1550465	100	2.1	100	83	2	258	33	11	11	44	1.75
1560282--1560334	21	2.5	22	84	6	74	22	24	20	32	1.98
1560321--1560376	20	2.8	20	97	0	103	41	21	19	17	1.91
1560573--1560638	22	3.0	22	90	0	105	24	39	15	21	1.91
1561008--1561072	20	3.2	20	80	0	67	16	15	23	44	1.86
1561038--1561077	20	2.0	20	90	0	62	12	12	17	57	1.65
1562349--1562410	31	2.0	31	100	0	124	25	9	25	38	1.86
1562998--1563144	20	7.8	20	76	10	121	42	19	19	19	1.90

Tables:   1   2   3   4   5   6   7   8   9   10   11   12