genome.fa.s8955.2.7.7.80.10.50.1000.7.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: VEPZ01008955.1 Hibiscus syriacus cultivar Beakdansim tig00112285_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4658001

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  7  of  23  ( 2731 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)
1275301--1275373	21	3.5	21	74	7	76	20	34	21	23	1.97
1279390--1279457	24	2.8	24	90	0	109	36	19	20	23	1.95
1280416--1280526	20	5.5	20	71	18	77	33	14	20	31	1.93
1280422--1280560	40	3.5	39	75	8	111	29	13	23	33	1.93
1280763--1280915	63	2.4	62	73	4	153	33	34	11	20	1.89
1280860--1280924	21	3.1	21	90	0	103	33	35	12	18	1.88
1281003--1281201	42	4.7	42	90	0	263	20	16	37	26	1.93
1281054--1281121	21	3.2	21	64	22	52	16	17	39	26	1.90
1282712--1282751	20	2.0	20	90	0	62	50	20	15	15	1.79
1283149--1283199	22	2.3	22	96	0	93	19	21	43	15	1.88
1283312--1283349	20	2.0	20	84	5	51	47	13	13	26	1.79
1283415--1283564	19	7.6	19	74	6	75	31	13	21	34	1.92
1287589--1287760	62	2.8	60	78	13	174	34	18	3	43	1.67
1287589--1287760	60	2.8	58	80	11	177	34	18	3	43	1.67
1289312--1289380	23	3.0	23	84	0	93	30	24	24	20	1.99
1290029--1290071	21	2.0	21	81	0	50	18	25	27	27	1.98
1294470--1294518	22	2.2	23	81	3	55	42	12	10	34	1.76
1295970--1296020	20	2.5	21	78	15	54	66	1	0	31	1.03
1295982--1296042	20	3.2	19	72	6	52	65	3	0	31	1.09
1296511--1296610	23	4.3	22	71	20	71	36	2	2	60	1.20
1296601--1296652	22	2.4	22	87	3	70	28	0	3	67	1.08
1296576--1296662	22	4.0	22	67	14	54	31	0	3	65	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1297220--1297264	24	2.0	23	83	16	58	51	0	4	44	1.21
1301094--1301128	18	1.9	18	94	0	61	8	14	0	77	0.99
1304147--1304362	58	3.8	57	75	11	192	39	8	12	39	1.72
1310223--1310296	29	2.6	29	95	2	132	20	21	14	43	1.88
1310312--1310347	12	3.0	12	91	0	63	36	25	5	33	1.79
1310655--1310879	64	3.5	64	80	6	197	26	20	20	32	1.97
1312158--1312205	21	2.3	20	79	10	60	22	20	16	39	1.92
1312168--1312215	21	2.3	21	88	0	69	16	20	18	43	1.88
1317077--1317109	15	2.2	15	94	0	57	30	33	21	15	1.94
1317254--1317283	12	2.5	12	94	0	51	36	23	3	36	1.71
1317642--1317803	64	2.5	63	84	5	184	26	22	19	31	1.98
1323049--1323137	25	3.6	25	96	0	160	35	22	8	32	1.85
1323335--1323396	26	2.4	26	91	0	106	32	16	22	29	1.95
1323511--1323548	18	2.1	18	85	9	51	36	18	26	18	1.94
1325536--1325592	21	2.7	21	88	0	87	28	19	26	26	1.99
1326288--1326330	22	1.9	23	85	4	61	18	20	34	25	1.96
1326368--1326420	20	2.5	22	84	6	74	24	18	9	47	1.78
1330370--1330395	13	2.0	13	100	0	52	23	0	38	38	1.55
1330178--1330802	114	5.6	111	70	14	344	32	4	11	52	1.57
1330653--1330889	101	2.3	102	82	7	288	30	3	11	54	1.52
1333380--1333579	27	7.0	27	75	12	148	40	14	4	40	1.66
1333447--1333621	90	2.0	88	89	2	269	43	14	4	37	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1335772--1335869	34	2.9	34	95	1	171	45	2	3	48	1.29
1335996--1336123	45	2.8	45	87	0	166	41	25	10	23	1.85
1336310--1336399	45	2.0	45	91	0	144	37	25	12	24	1.90
1336406--1336464	25	2.4	25	91	2	93	35	6	1	55	1.36
1336665--1337076	201	2.0	203	90	1	657	39	14	7	38	1.74
1339928--1340040	58	1.9	60	85	7	160	43	18	22	15	1.88
1342665--1342708	16	2.7	16	80	16	54	45	4	0	50	1.22
1342670--1342708	17	2.3	18	87	12	57	43	5	0	51	1.24
1345142--1345184	15	2.9	15	96	0	77	11	58	13	16	1.64
1348045--1348088	19	2.3	19	88	7	63	54	0	2	43	1.12
1348235--1348295	23	2.7	24	78	12	67	49	0	4	45	1.23
1348247--1348332	33	2.5	35	80	15	85	51	2	3	43	1.31
1348276--1348328	22	2.4	22	72	12	54	52	3	1	41	1.30
1348315--1348369	23	2.3	23	79	11	67	50	0	0	49	1.00
1352609--1352803	51	3.9	51	87	7	263	47	14	13	24	1.80
1352611--1352803	101	1.9	101	87	4	282	47	13	13	24	1.80
1355010--1355103	43	2.2	43	92	0	152	42	20	12	24	1.87
1355419--1355450	15	2.0	17	88	11	50	31	15	6	46	1.71
1361926--1362000	32	2.5	32	79	16	88	44	0	0	56	0.99
1361904--1362016	15	7.4	15	68	14	52	41	0	0	57	1.05
1363725--1363824	42	2.4	42	81	0	110	23	36	17	24	1.95
1363809--1363870	21	3.0	21	86	6	90	24	35	16	24	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1364397--1364503	34	3.1	34	87	0	160	53	5	3	37	1.43
1364926--1365433	127	4.0	127	95	0	908	33	21	24	21	1.97
1369992--1370028	19	1.9	19	94	0	65	32	29	16	21	1.95
1370073--1370171	21	4.8	20	77	10	92	28	17	19	35	1.94
1370114--1370228	20	5.7	20	78	8	99	36	16	19	27	1.93
1370073--1370208	62	2.2	62	93	0	236	32	16	19	31	1.94
1370054--1370188	21	6.5	21	73	12	91	30	18	18	32	1.95
1370114--1370269	82	1.9	81	80	6	181	34	19	19	26	1.95
1370238--1370340	20	5.1	20	80	6	118	30	26	19	24	1.98
1370220--1370340	61	2.0	61	86	0	170	29	26	20	23	1.99
1370513--1370581	22	3.1	22	87	0	111	24	42	11	21	1.86
1370924--1370979	20	2.9	19	78	2	67	26	21	21	30	1.98
1370931--1371018	20	4.4	20	81	1	79	18	18	22	40	1.91
1370985--1371028	20	2.2	20	87	0	61	11	11	20	56	1.64
1372848--1372909	31	2.0	31	87	9	90	22	8	17	51	1.71
1373022--1373131	20	5.8	20	67	17	72	38	20	21	19	1.94
1373138--1373174	19	1.9	19	88	0	56	5	13	27	54	1.61
1373177--1373222	20	2.3	20	92	0	83	21	19	26	32	1.97
1373232--1373275	20	2.2	20	95	0	79	13	9	22	54	1.67
1373738--1373839	21	4.9	21	69	9	73	22	32	18	26	1.97
1375220--1375285	30	2.2	30	97	0	123	27	4	13	54	1.58
1375381--1375551	20	8.9	20	78	7	192	23	19	22	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1375342--1375551	114	1.8	114	86	2	305	23	19	21	35	1.96
1375715--1375749	18	1.9	18	94	0	61	17	2	25	54	1.57
1377785--1377821	14	2.6	14	91	4	56	5	21	21	51	1.68
1378011--1378064	24	2.2	24	93	0	90	40	20	18	20	1.91
1378884--1378945	20	3.1	20	97	0	115	22	19	30	27	1.98
1378937--1378991	21	2.6	21	88	0	74	20	20	25	34	1.96
1378985--1379032	20	2.4	20	96	0	87	22	16	16	43	1.87
1379106--1379152	19	2.4	19	82	3	58	25	14	29	29	1.95
1379118--1379154	19	1.9	19	94	0	65	21	16	29	32	1.95
1383433--1383480	16	2.9	16	79	14	53	54	2	0	43	1.12
1384231--1384287	11	4.9	11	72	19	53	45	0	8	45	1.34
1384150--1384356	36	5.6	36	77	10	175	42	3	8	45	1.50
1384544--1384575	12	2.7	12	90	0	55	37	25	28	9	1.87
1385930--1385988	23	2.5	23	81	13	66	22	1	5	71	1.15
1389463--1390787	106	12.6	106	90	3	1962	33	25	17	23	1.96
1391016--1391291	83	3.3	84	87	3	421	29	26	19	24	1.98
1391016--1391314	84	3.6	84	86	3	415	29	26	19	24	1.98
1391853--1391915	26	2.4	26	86	5	83	42	1	11	44	1.49
1391868--1391915	25	2.0	23	84	11	62	45	0	10	43	1.38
1391831--1391956	64	2.0	63	84	7	164	42	3	9	45	1.52
1391881--1392085	38	5.8	36	70	17	119	40	3	9	45	1.54
1391881--1391995	36	3.1	36	76	7	115	41	3	10	44	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1391881--1392048	74	2.3	72	81	11	193	42	2	9	45	1.52
1392162--1392187	5	5.2	5	100	0	52	19	0	0	80	0.71
1392218--1392251	12	2.8	12	86	0	50	41	26	23	8	1.83
1393027--1393079	22	2.4	22	90	0	88	20	28	47	3	1.68
1393482--1393531	24	2.1	24	82	10	59	18	2	6	74	1.12
1393602--1393658	28	2.0	28	100	0	114	31	7	14	47	1.70
1393709--1394042	167	2.0	167	100	0	668	25	24	22	26	2.00
1400379--1400451	30	2.4	30	93	0	119	30	23	20	26	1.99
1400437--1400564	31	4.1	31	77	6	132	34	20	17	27	1.95
1400438--1400558	62	1.9	62	86	8	174	33	20	18	28	1.96

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23