genome.fa.s7918.2.7.7.80.10.50.1000.5.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: VEPZ01007918.1 Hibiscus syriacus cultivar Beakdansim tig00110321_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2302251

Tables:   1   2   3   4   5   6   7   8   9   

This is table  5  of  9  ( 1022 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)
1212011--1212102	37	2.5	37	81	10	100	75	0	8	16	1.04
1212170--1212240	25	3.0	24	79	12	83	74	1	5	18	1.08
1212193--1212230	18	2.1	18	90	0	58	81	2	0	15	0.80
1212272--1212330	3	19.7	3	96	0	109	67	1	0	30	1.00
1212391--1212436	2	23.0	2	95	0	83	47	0	2	50	1.13
1214145--1214310	65	2.5	66	82	3	217	40	12	19	27	1.87
1214129--1214311	68	2.7	66	81	4	224	38	12	19	30	1.88
1214272--1214593	36	9.2	36	77	8	288	39	11	20	27	1.88
1214214--1214550	172	1.9	174	89	1	516	41	12	21	24	1.87
1220120--1220171	12	4.2	12	79	15	54	67	3	15	13	1.37
1220163--1220208	15	3.0	15	87	12	67	76	0	8	15	1.02
1220204--1220241	20	1.9	19	89	5	58	73	0	10	15	1.09
1220159--1220272	44	2.5	44	76	17	110	72	1	7	17	1.17
1220321--1220396	25	3.0	23	78	14	80	75	1	6	17	1.09
1220591--1220628	20	1.9	20	84	10	51	76	0	0	23	0.79
1226659--1226713	26	2.2	26	83	6	69	12	45	5	36	1.66
1236957--1237370	206	2.0	207	99	0	812	27	18	19	34	1.95
1239421--1239459	20	2.0	20	85	5	53	41	0	2	56	1.13
1240744--1240809	32	2.1	31	83	8	80	30	4	4	60	1.37
1243456--1243480	13	1.9	13	100	0	50	36	0	16	48	1.46
1243667--1243713	20	2.3	21	77	3	51	51	0	2	46	1.13
1245778--1245832	10	5.6	10	79	8	51	43	1	5	49	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1255356--1255383	11	2.5	11	100	0	56	21	32	17	28	1.96
1256734--1256766	16	2.1	16	100	0	66	24	15	18	42	1.88
1259913--1260140	122	1.9	122	97	2	395	31	8	21	38	1.83
1264427--1264461	16	2.2	16	94	0	61	54	11	2	31	1.51
1266159--1266245	43	2.0	43	97	0	165	44	16	12	26	1.83
1267359--1267405	25	1.9	24	86	4	67	44	2	2	51	1.25
1292577--1292615	14	2.8	14	88	0	60	20	38	28	12	1.89
1292625--1292657	14	2.4	14	94	0	57	24	33	30	12	1.91
1292638--1292711	33	2.2	33	87	0	112	28	25	36	9	1.87
1292811--1292835	12	2.1	12	100	0	50	16	36	8	40	1.77
1292853--1292909	29	2.0	29	89	6	89	21	28	33	17	1.96
1309632--1309688	21	2.7	21	88	0	87	26	28	21	24	1.99
1318670--1318836	83	2.0	83	100	0	334	33	25	10	29	1.90
1319594--1319646	21	2.5	21	100	0	106	26	24	13	35	1.92
1325125--1325248	42	3.0	42	88	7	191	12	6	53	28	1.62
1325125--1325353	36	6.1	36	84	7	228	17	6	49	26	1.70
1325125--1325383	36	6.6	39	77	12	194	18	6	49	25	1.72
1325479--1325593	45	2.6	45	84	2	151	22	8	41	26	1.83
1328884--1328933	21	2.4	21	82	0	64	32	6	20	42	1.76
1328919--1329011	21	4.4	21	72	10	73	44	2	19	34	1.63
1328876--1329011	63	2.2	63	82	0	164	42	3	17	36	1.67
1328944--1329038	42	2.3	42	81	1	102	43	3	18	34	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1329099--1329198	21	4.8	21	76	2	69	45	6	17	32	1.72
1331367--1331425	21	2.7	22	79	10	68	44	0	1	54	1.10
1331367--1331451	40	2.1	42	82	8	104	44	0	2	52	1.13
1331532--1331582	2	25.5	2	95	0	93	49	1	0	49	1.12
1331612--1331637	13	2.0	13	100	0	52	46	0	38	15	1.46
1331946--1331983	19	2.1	18	85	9	51	36	7	0	55	1.29
1332075--1332298	2	113.0	2	68	19	123	42	4	4	49	1.42
1332849--1332970	26	4.7	25	71	23	76	63	0	4	31	1.18
1332849--1333228	30	12.2	32	64	23	95	63	2	4	29	1.27
1333043--1333228	96	1.9	100	79	12	217	63	2	4	29	1.29
1333181--1333225	19	2.4	18	81	3	54	66	2	0	31	1.04
1333417--1333463	21	2.3	21	85	3	60	40	14	23	21	1.90
1333417--1333625	41	5.1	41	70	12	128	33	19	19	28	1.96
1333483--1333545	20	3.0	21	79	4	74	22	20	17	39	1.92
1333535--1333625	20	4.6	20	86	2	121	36	21	19	21	1.95
1334202--1334333	19	7.1	19	78	11	139	12	22	19	44	1.85
1337883--1337918	14	2.6	14	95	0	63	30	0	25	44	1.54
1338025--1338116	19	5.4	19	69	24	87	46	18	19	15	1.84
1338025--1338150	33	3.8	33	91	2	182	46	21	18	13	1.83
1338090--1338166	19	4.3	19	78	18	76	48	24	14	12	1.79
1338166--1338292	33	3.8	33	93	0	209	13	24	18	44	1.85
1338201--1338292	19	5.4	19	68	24	87	15	21	17	45	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1338286--1338358	20	3.6	20	68	17	51	24	15	24	35	1.94
1340621--1340657	12	3.1	12	100	0	74	0	27	0	72	0.84
1340832--1340885	24	2.2	24	90	0	81	40	20	16	22	1.91
1341670--1341723	20	2.7	20	80	8	65	40	16	20	22	1.91
1341991--1342058	20	3.4	20	72	8	75	41	23	22	13	1.89
1341975--1342078	40	2.9	34	75	15	100	41	22	22	14	1.89
1342085--1342152	19	3.8	19	85	12	92	13	20	17	48	1.80
1343736--1343827	42	2.2	42	86	5	134	20	15	41	22	1.90
1343764--1343823	21	2.9	21	73	9	68	21	13	41	23	1.88
1344170--1344281	20	5.7	20	84	2	136	38	25	20	16	1.92
1344249--1344298	19	2.6	19	87	0	73	44	20	20	16	1.87
1344310--1344368	14	3.9	14	72	20	55	11	16	22	49	1.78
1344305--1344384	33	2.4	33	93	0	142	12	18	21	47	1.81
1344326--1344404	19	4.4	19	72	16	69	15	20	20	44	1.87
1344357--1344412	20	2.8	20	86	2	78	16	21	21	41	1.90
1346622--1346665	22	2.0	22	90	0	70	18	13	45	22	1.84
1346858--1346924	20	3.3	21	79	8	77	29	11	28	29	1.92
1346832--1346969	41	3.4	41	76	2	152	23	14	24	36	1.93
1346890--1346966	20	3.8	20	80	10	93	20	16	28	33	1.95
1346963--1347010	21	2.3	21	96	0	87	25	22	12	39	1.89
1347017--1347069	21	2.5	22	81	6	74	33	18	26	20	1.96
1347610--1347702	37	2.5	37	85	0	114	34	10	12	41	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1356732--1356810	31	2.5	30	80	11	88	43	1	3	51	1.27
1357549--1357636	20	4.4	19	72	20	63	52	2	1	44	1.21
1357544--1357630	31	2.8	31	79	10	97	54	2	1	42	1.20
1357539--1357606	19	3.5	20	75	15	63	54	0	2	42	1.15
1361518--1361578	11	5.1	12	75	18	56	55	0	0	44	0.99
1361516--1361576	18	3.4	18	100	0	122	55	0	0	44	0.99
1367281--1367379	46	2.2	45	83	7	119	34	18	11	36	1.86
1370817--1370861	15	3.0	15	90	6	65	44	0	0	55	0.99
1370809--1370858	18	2.9	17	80	19	59	44	2	0	54	1.11
1377307--1377400	31	3.0	31	90	3	136	20	18	23	38	1.93
1379141--1379189	21	2.2	23	85	10	75	22	32	22	22	1.98
1379141--1379192	22	2.4	22	90	6	79	23	32	23	21	1.98
1379729--1379792	21	3.0	21	86	4	92	28	23	25	23	2.00
1380303--1380345	18	2.4	18	88	0	68	23	25	11	39	1.88
1394370--1394418	17	2.9	17	96	3	91	53	6	24	16	1.66
1405261--1405301	19	2.0	20	90	9	66	14	12	4	68	1.36
1405441--1405499	31	2.0	29	87	9	84	50	0	1	47	1.11
1411253--1411307	16	3.2	17	76	16	60	21	9	36	32	1.85
1411300--1411394	49	1.9	49	93	0	163	14	30	37	16	1.89
1411527--1411581	24	2.2	24	78	9	58	25	12	3	58	1.51
1414369--1414406	2	19.0	2	100	0	76	50	0	0	50	1.00
1416240--1416315	3	25.3	3	79	15	86	31	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1416240--1416306	13	4.9	13	80	20	59	29	0	0	70	0.88
1416244--1416318	22	3.4	22	81	12	91	32	0	0	68	0.90
1418396--1418439	22	2.0	22	81	0	52	27	4	15	52	1.63
1422840--1422947	11	9.5	11	73	16	78	70	10	15	3	1.29
1422840--1422947	24	4.7	23	73	17	89	70	10	15	3	1.29
1422839--1422948	23	4.7	23	74	17	95	70	10	15	3	1.30
1422840--1422948	35	3.1	34	77	6	121	70	10	15	3	1.28
1422932--1422965	14	2.3	15	90	5	52	73	8	14	2	1.19
1422839--1422962	22	5.5	21	76	15	83	70	11	15	3	1.29
1424141--1424175	18	2.1	16	89	10	52	54	20	0	25	1.45

Tables:   1   2   3   4   5   6   7   8   9