genome.fa.s7968.2.7.7.80.10.50.1000.5.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: VEPZ01007968.1 Hibiscus syriacus cultivar Beakdansim tig00110403_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1361854

Tables:   1   2   3   4   5   

This is table  5  of  5  ( 589 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)
1089097--1089130	11	3.1	11	100	0	68	52	0	0	47	1.00
1094425--1094558	4	34.2	4	82	7	123	44	23	5	26	1.75
1094425--1094525	14	6.9	14	77	6	67	47	23	1	26	1.62
1096037--1096091	2	27.5	2	100	0	110	50	0	0	49	1.00
1106121--1106205	32	2.6	34	72	9	86	42	3	2	51	1.31
1106423--1106475	14	3.9	14	76	11	56	28	0	24	47	1.52
1106435--1106482	14	3.4	14	76	0	51	27	2	25	45	1.64
1106429--1106492	28	2.3	29	81	8	87	28	1	21	48	1.59
1119033--1119064	6	5.3	6	92	0	55	3	31	15	50	1.60
1120566--1120647	43	1.9	43	100	0	164	50	13	12	24	1.76
1126664--1126738	32	2.3	32	97	0	141	32	13	22	32	1.93
1129167--1129324	43	3.7	43	96	1	291	35	15	8	40	1.78
1133488--1133598	30	3.7	30	82	3	125	56	8	17	18	1.64
1135159--1135209	18	2.8	18	80	8	59	56	0	3	39	1.18
1135160--1135216	24	2.2	26	82	14	66	59	0	1	38	1.08
1144770--1144814	22	2.0	23	86	4	65	35	8	8	46	1.66
1154921--1154971	22	2.2	23	80	16	61	58	5	1	33	1.33
1154927--1154971	22	2.0	23	87	8	67	60	6	2	31	1.35
1154928--1154976	22	2.3	20	83	13	55	61	8	2	28	1.36
1156967--1157018	27	1.9	27	84	0	68	25	7	26	40	1.82
1156973--1157252	140	2.0	140	85	1	373	31	11	27	30	1.91
1157430--1157534	52	2.0	53	87	5	151	41	16	3	38	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1166587--1166612	2	13.0	2	100	0	52	0	50	0	50	1.00
1171784--1171808	2	12.5	2	100	0	50	52	0	0	48	1.00
1178664--1178782	59	2.0	58	85	7	161	38	2	12	46	1.56
1184329--1184375	22	2.1	23	92	4	78	46	0	12	40	1.42
1184404--1184437	17	2.0	17	88	0	50	58	0	0	41	0.98
1187545--1187582	20	1.9	20	100	0	76	31	0	10	57	1.32
1187544--1187589	20	2.3	20	88	0	74	34	0	8	56	1.30
1188138--1188185	19	2.5	20	93	6	89	50	4	0	45	1.21
1188555--1188588	2	17.0	2	100	0	68	50	0	0	50	1.00
1192475--1192547	31	2.3	32	92	2	121	46	10	10	31	1.74
1198734--1198773	21	1.9	21	84	0	53	45	12	15	27	1.82
1210159--1210185	13	2.1	13	100	0	54	44	7	18	29	1.77
1211317--1211378	31	2.0	31	100	0	124	35	16	12	35	1.87
1223426--1223539	60	1.9	60	88	0	174	36	19	10	33	1.86
1224562--1224599	20	1.9	20	94	0	67	39	28	7	23	1.83
1224512--1224651	71	2.0	71	83	8	178	37	26	10	25	1.87
1224562--1224607	20	2.2	20	88	3	65	43	28	8	19	1.80
1240864--1240888	7	3.6	7	100	0	50	0	12	0	88	0.53
1250750--1250818	35	2.0	35	97	0	129	34	17	11	36	1.86
1257820--1257854	18	1.9	18	94	0	61	40	14	28	17	1.88
1260932--1260969	18	2.1	19	95	5	69	50	0	0	50	1.00
1261657--1261784	60	2.1	60	78	15	140	49	6	1	42	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1261915--1261951	6	6.2	6	96	0	65	2	51	0	45	1.15
1264853--1264960	54	2.0	54	92	0	180	24	16	24	35	1.95
1265224--1265291	24	2.8	24	93	0	109	23	4	44	27	1.72
1275517--1275626	50	2.2	50	83	9	134	40	1	4	52	1.32
1276039--1276075	19	1.9	19	94	0	65	18	43	8	29	1.79
1285848--1286168	159	2.0	159	89	3	495	24	14	30	29	1.95
1287383--1287438	22	2.5	22	88	0	85	44	17	10	26	1.82
1287388--1287432	13	3.8	13	77	22	53	42	20	13	24	1.87
1292643--1292760	18	6.6	18	77	2	121	35	22	3	38	1.71
1292643--1292760	36	3.3	36	93	0	200	35	22	3	38	1.71
1292643--1292761	6	19.8	6	69	10	55	35	22	3	38	1.71
1293099--1293198	38	2.6	38	88	0	137	24	26	21	29	1.99
1293129--1293206	38	2.1	38	95	0	138	23	26	23	26	2.00
1295570--1295629	30	2.0	30	83	3	77	35	18	6	40	1.77
1298262--1298370	45	2.4	45	89	0	155	21	10	34	33	1.87
1298299--1298392	45	2.1	45	85	0	125	23	14	32	28	1.94
1303536--1303910	104	3.8	98	79	12	322	25	22	12	40	1.89
1303544--1303990	102	4.5	97	80	9	368	26	21	12	39	1.89
1310778--1310842	29	2.2	29	86	0	85	38	16	13	30	1.88
1311838--1311883	20	2.3	20	85	7	58	45	23	10	19	1.82
1311883--1311923	21	2.0	21	85	0	55	48	12	12	26	1.75
1311886--1311951	20	3.2	20	86	2	87	45	15	18	21	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1312301--1312351	20	2.5	20	90	3	75	17	19	17	45	1.86
1312301--1312368	21	3.3	21	81	8	77	20	20	16	42	1.89
1313292--1313474	60	3.1	58	77	10	156	40	6	22	30	1.78
1313292--1313450	59	2.7	59	77	9	153	41	6	20	30	1.79
1318821--1318860	22	1.9	22	85	10	57	25	0	10	65	1.24
1320829--1320869	21	2.0	21	85	4	57	46	4	4	43	1.46
1321000--1321040	21	2.0	21	85	4	57	46	4	4	43	1.46
1320718--1321058	171	2.0	170	98	0	664	44	5	10	38	1.63
1326077--1326192	59	2.0	60	86	8	166	42	5	19	32	1.74
1327172--1327206	5	7.0	5	100	0	70	20	0	0	80	0.72
1336975--1337020	23	2.0	23	84	12	60	41	4	10	43	1.59
1340311--1340408	20	4.8	20	74	3	79	36	23	17	22	1.94
1340395--1340565	20	8.6	20	84	5	107	35	26	18	20	1.95
1340375--1340584	60	3.5	58	80	7	208	37	25	17	20	1.94
1340429--1340584	20	7.8	20	87	4	174	35	25	17	21	1.95
1340395--1340584	40	4.8	40	86	5	208	36	25	17	20	1.94
1341486--1341510	12	2.1	12	100	0	50	72	0	28	0	0.86
1343784--1344057	19	15.4	19	81	15	345	47	18	20	14	1.82
1343812--1344079	109	2.5	104	89	6	437	47	17	20	14	1.83
1343812--1344079	52	5.0	52	90	4	428	47	17	20	14	1.83
1343778--1344079	71	4.3	73	81	15	345	47	18	19	14	1.83
1344086--1344187	19	5.6	19	85	12	151	14	23	17	44	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1344294--1344330	14	2.6	14	91	0	65	45	21	0	32	1.52
1346286--1346342	14	3.7	14	77	20	60	45	22	21	10	1.82
1346267--1346359	33	2.8	33	95	0	168	47	21	20	10	1.80
1346230--1346364	19	7.6	19	76	16	128	45	23	19	11	1.82
1346360--1346488	19	7.3	19	75	17	125	8	17	28	45	1.77
1346360--1346451	33	2.8	33	93	3	150	7	18	28	45	1.76
1346532--1347002	92	5.1	93	97	1	903	46	18	12	22	1.83
1348706--1348795	14	5.7	14	74	23	81	42	23	25	8	1.83
1348698--1348812	33	3.5	33	95	0	212	45	20	24	9	1.81
1348705--1348817	19	6.8	18	72	23	88	43	22	24	9	1.83
1348829--1348883	14	3.6	14	73	21	56	9	25	23	41	1.83
1348813--1348883	33	2.2	33	94	0	124	8	22	25	43	1.81
1348824--1348905	33	2.5	33	89	2	119	9	25	21	42	1.84
1348836--1348924	20	4.8	20	72	19	75	12	24	19	43	1.85
1349004--1349074	33	2.2	33	92	0	115	47	18	22	11	1.80
1349256--1349310	22	2.5	22	81	0	74	20	16	40	23	1.91
1349415--1349607	20	9.6	20	82	5	219	19	19	25	35	1.95
1349415--1349607	60	3.2	60	83	0	251	19	19	25	35	1.95
1349663--1349714	20	2.6	20	96	0	95	21	13	26	38	1.90
1356989--1357270	143	2.0	144	94	0	503	34	15	20	29	1.94
1359642--1359672	2	15.5	2	100	0	62	48	0	0	51	1.00

Tables:   1   2   3   4   5

The End!