genome.fa.s7853.2.7.7.80.10.50.1000.5.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: VEPZ01007853.1 Hibiscus syriacus cultivar Beakdansim tig00110213_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2309479

Tables:   1   2   3   4   5   6   7   8   

This is table  5  of  8  ( 900 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)
1160180--1160216	14	2.6	14	91	0	65	45	21	0	32	1.52
1162197--1162253	14	3.7	14	77	20	60	45	22	21	10	1.82
1162178--1162270	33	2.8	33	95	0	168	47	21	20	10	1.80
1162141--1162275	19	7.6	19	76	16	128	45	23	19	11	1.82
1162271--1162399	19	7.3	19	75	17	125	8	17	28	45	1.77
1162271--1162362	33	2.8	33	93	3	150	7	18	28	45	1.76
1162447--1162636	93	2.1	93	96	1	355	45	19	12	22	1.83
1164343--1164399	14	3.7	14	75	20	60	43	22	24	8	1.81
1164335--1164416	33	2.5	33	100	0	164	47	19	23	9	1.79
1164357--1164421	19	3.7	19	74	19	77	44	21	23	10	1.83
1164433--1164489	14	3.7	14	72	20	51	10	24	21	43	1.83
1164417--1164538	33	3.5	33	83	10	136	10	23	19	45	1.81
1164474--1164570	21	4.7	21	87	2	142	12	24	15	47	1.80
1164650--1164720	33	2.2	33	92	0	115	47	18	22	11	1.80
1164902--1164956	22	2.5	22	81	0	74	20	16	40	23	1.91
1165103--1165256	20	7.7	20	81	7	168	18	18	26	37	1.93
1165102--1165256	40	3.8	40	82	4	186	18	18	26	37	1.93
1165243--1165325	21	4.0	21	73	6	78	25	16	24	33	1.96
1165223--1165321	42	2.4	43	77	11	100	21	18	23	37	1.94
1177817--1177852	19	2.0	18	89	10	56	27	5	27	38	1.79
1188651--1188713	32	2.1	29	82	8	72	58	6	1	33	1.33
1188847--1188910	9	6.7	10	83	15	73	76	7	1	14	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1188846--1188917	29	2.5	28	86	10	101	76	8	1	13	1.08
1188844--1188917	19	3.9	19	84	7	87	75	8	1	14	1.09
1188847--1188923	10	7.9	10	78	10	61	74	9	1	15	1.14
1207538--1207632	42	2.3	43	88	3	140	24	9	13	52	1.70
1207932--1207995	27	2.3	26	84	12	83	50	0	1	48	1.10
1207999--1208043	23	2.0	23	86	0	63	55	2	0	42	1.12
1208138--1208176	20	2.0	20	85	14	55	58	0	0	41	0.98
1209542--1209585	21	2.1	21	86	0	61	56	0	4	38	1.20
1210413--1210503	20	4.8	18	86	9	128	25	24	8	41	1.83
1210413--1210503	38	2.4	38	94	3	157	25	24	8	41	1.83
1210589--1210672	44	1.9	44	90	0	132	29	15	19	35	1.92
1228044--1228120	39	2.0	39	85	5	95	48	0	2	49	1.15
1237754--1237792	14	2.8	13	88	11	51	23	2	2	71	1.10
1237752--1237794	18	2.5	17	81	7	52	25	2	2	69	1.12
1237800--1237824	2	12.5	2	100	0	50	48	0	0	52	1.00
1240800--1240838	8	5.0	8	84	6	53	10	17	12	58	1.61
1242637--1242687	22	2.3	22	96	0	93	35	27	11	25	1.91
1243548--1243652	36	2.9	36	88	2	156	24	23	12	39	1.89
1243548--1243657	37	3.0	37	87	2	159	26	23	11	38	1.89
1243566--1243957	102	3.9	102	94	0	651	29	21	12	36	1.90
1243684--1243754	37	1.9	37	88	0	106	23	21	12	42	1.87
1243770--1243856	37	2.4	37	86	5	115	25	21	13	39	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1243566--1244024	204	2.2	203	88	1	675	29	21	12	36	1.90
1243871--1243940	36	1.9	36	85	0	95	27	21	12	38	1.90
1243886--1243957	36	2.0	36	83	0	90	26	23	12	37	1.90
1243899--1244057	67	2.4	67	87	4	223	32	22	11	33	1.90
1244891--1245963	105	10.3	104	90	4	1542	33	26	18	22	1.96
1244891--1245963	205	5.2	205	92	2	1612	33	26	18	22	1.96
1244891--1245963	310	3.4	311	90	5	1569	33	26	18	22	1.96
1246962--1247000	14	2.8	13	88	11	51	23	2	2	71	1.10
1246960--1247002	18	2.5	17	81	7	52	25	2	2	69	1.12
1247006--1247078	2	36.5	2	97	0	137	47	0	1	50	1.09
1247276--1247321	24	1.9	24	82	8	58	21	2	2	73	1.04
1247476--1247506	2	15.5	2	100	0	62	48	0	0	51	1.00
1247550--1247609	31	1.9	31	83	6	77	13	13	1	71	1.22
1251621--1251660	17	2.3	19	87	12	59	10	10	25	55	1.64
1255984--1256024	21	1.9	22	90	5	66	34	2	0	63	1.08
1256038--1256080	2	21.5	2	100	0	86	51	0	0	48	1.00
1257901--1257940	21	2.0	20	85	9	55	25	5	20	50	1.68
1267982--1268023	2	21.0	2	100	0	84	50	0	0	50	1.00
1275793--1275861	30	2.2	30	82	15	86	34	4	17	43	1.69
1275803--1275862	29	2.0	30	93	6	104	33	3	16	46	1.64
1276042--1276112	20	3.5	20	74	11	72	21	28	21	29	1.98
1281654--1281984	165	2.0	166	99	0	655	31	10	23	35	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1282529--1282641	58	1.9	60	87	3	167	25	7	7	60	1.49
1287460--1287504	23	2.0	23	86	0	63	48	17	4	28	1.66
1298719--1298768	23	2.2	23	88	0	73	42	18	14	26	1.87
1305848--1305910	30	2.0	32	87	6	94	22	15	14	47	1.81
1307622--1307691	19	3.7	19	75	11	72	47	0	1	51	1.09
1308621--1308738	53	2.2	52	89	2	182	37	10	14	38	1.80
1317760--1317838	31	2.5	31	93	0	140	45	7	3	43	1.50
1317756--1317853	31	3.2	29	79	13	108	45	8	3	42	1.49
1348744--1348786	22	2.0	22	81	9	52	67	4	2	25	1.22
1348846--1348912	29	2.3	29	76	5	73	50	1	10	37	1.46
1351245--1351284	19	2.2	19	86	4	55	35	0	0	65	0.93
1351677--1351702	3	8.7	3	100	0	52	30	0	0	69	0.89
1357950--1358049	26	3.8	26	76	6	85	56	0	3	41	1.15
1357981--1358071	27	3.5	25	82	11	96	53	0	3	42	1.17
1357997--1358068	25	2.9	24	85	8	92	54	0	4	41	1.20
1360283--1360334	27	2.0	26	88	3	77	44	1	0	53	1.11
1360519--1360553	14	2.5	14	90	0	52	40	11	14	34	1.82
1361324--1361374	23	2.2	23	86	6	68	11	19	11	56	1.65
1362495--1363800	661	2.0	655	82	5	1594	29	17	19	33	1.95
1370477--1370543	33	2.0	35	91	5	111	32	17	11	37	1.87
1375058--1375215	21	7.8	20	71	9	88	38	25	16	19	1.92
1375118--1375234	20	5.7	20	75	12	78	38	23	17	20	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1375202--1375451	20	12.5	20	84	4	254	37	24	18	19	1.94
1375182--1375451	40	6.8	40	87	1	292	37	24	18	19	1.94
1376134--1376180	24	2.0	24	87	8	69	25	14	21	38	1.92
1376355--1376379	12	2.1	12	100	0	50	72	0	28	0	0.86
1378660--1378767	33	3.2	33	85	7	164	47	19	20	12	1.82
1378674--1378857	19	10.4	19	77	17	209	47	17	20	14	1.83
1378702--1378838	52	2.6	52	97	1	256	46	16	22	14	1.83
1378704--1378879	52	3.4	52	88	5	223	46	16	23	14	1.83
1378741--1378879	71	2.0	71	98	0	269	46	16	22	15	1.84
1378886--1379001	53	2.2	53	96	1	216	14	23	18	43	1.86
1378904--1379001	19	5.4	19	84	13	143	14	22	17	45	1.84
1379108--1379144	14	2.6	14	91	0	65	45	21	0	32	1.52
1381069--1381203	19	7.6	19	76	16	128	46	23	18	11	1.81
1381103--1381198	33	2.9	33	93	3	167	48	21	18	10	1.78
1381125--1381181	14	3.7	14	75	24	53	47	22	19	10	1.80
1381199--1381327	19	7.3	19	75	17	116	8	16	28	46	1.76
1381199--1381290	33	2.8	33	91	3	141	7	17	28	46	1.75
1381375--1381843	93	5.1	93	98	0	913	45	19	12	22	1.83
1383550--1383639	14	5.7	14	72	23	72	43	23	24	8	1.82
1383542--1383656	33	3.5	33	97	0	221	46	20	23	9	1.80
1383564--1383661	19	5.7	19	71	22	90	43	22	23	10	1.83
1383673--1383729	14	3.7	14	75	20	60	8	24	22	43	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1383657--1383737	33	2.5	33	95	0	144	8	22	22	46	1.78
1383714--1383789	21	3.7	21	83	3	109	11	25	17	46	1.82
1383713--1383790	41	1.9	41	97	0	147	12	25	16	44	1.83
1383869--1383939	33	2.2	33	92	0	115	47	18	22	11	1.80
1384121--1384175	22	2.5	22	78	0	65	20	18	38	23	1.93
1384322--1384515	20	9.6	20	82	5	221	19	19	25	35	1.95
1384322--1384515	60	3.2	60	83	0	253	19	19	25	35	1.95
1384502--1384584	21	4.0	21	73	6	78	25	16	24	33	1.96
1384482--1384580	42	2.4	43	77	11	100	21	18	23	37	1.94
1387944--1387978	3	11.7	3	93	0	61	62	2	0	34	1.10

Tables:   1   2   3   4   5   6   7   8