genome.fa.s7894.2.7.7.80.10.50.1000.6.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: VEPZ01007894.1 Hibiscus syriacus cultivar Beakdansim tig00110279_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1425917

Tables:   1   2   3   4   5   6   7   

This is table  6  of  7  ( 721 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)
1205366--1205409	19	2.2	20	84	11	56	61	2	6	29	1.34
1205620--1205764	72	2.0	72	100	0	290	48	12	4	34	1.60
1215291--1215324	16	2.1	16	94	0	59	32	8	26	32	1.87
1216075--1216106	15	2.1	16	94	5	57	50	18	25	6	1.70
1222945--1222989	21	2.1	21	84	8	56	46	24	0	28	1.53
1223561--1223596	16	2.3	16	90	4	56	55	0	0	44	0.99
1224073--1224106	2	17.0	2	100	0	68	50	0	0	50	1.00
1224195--1224255	29	2.1	29	100	0	122	40	6	4	47	1.51
1224311--1224336	2	13.0	2	100	0	52	50	0	0	50	1.00
1225143--1225183	22	1.9	21	90	5	64	24	0	4	70	1.06
1226162--1226208	22	2.1	22	84	7	60	36	4	0	59	1.17
1226750--1226788	17	2.4	17	95	4	71	51	5	0	43	1.24
1227930--1228080	82	1.8	82	91	0	248	29	9	7	52	1.63
1229360--1229470	31	3.5	31	78	10	102	40	16	10	32	1.83
1229579--1229626	23	2.1	23	100	0	96	35	4	8	52	1.51
1230955--1231100	21	7.0	21	74	16	133	19	19	26	34	1.96
1230961--1231100	42	3.3	42	100	0	280	20	18	26	35	1.95
1233108--1233361	126	2.0	126	89	0	391	37	16	16	29	1.90
1233388--1233449	31	2.1	29	82	11	72	37	12	14	35	1.85
1235091--1235118	2	14.0	2	100	0	56	50	0	0	50	1.00
1241846--1241882	15	2.5	15	95	0	65	5	16	70	8	1.30
1243721--1243814	21	4.5	21	98	0	179	13	23	9	53	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1243956--1243981	11	2.4	11	100	0	52	46	0	11	42	1.40
1244106--1244136	2	15.5	2	100	0	62	51	0	0	48	1.00
1246260--1246393	67	2.0	67	98	0	259	29	13	14	43	1.83
1246271--1246378	33	3.2	32	66	21	87	29	14	12	42	1.83
1247610--1247647	17	2.2	18	86	9	53	60	7	5	26	1.46
1251307--1251472	70	2.4	70	97	0	314	51	12	14	21	1.74
1256005--1256054	2	25.0	2	100	0	100	50	0	0	50	1.00
1257627--1258019	181	2.2	183	88	5	584	43	2	7	46	1.44
1259960--1259984	13	1.9	13	100	0	50	36	8	24	32	1.84
1262515--1262556	11	3.8	11	84	9	59	30	0	0	69	0.89
1266496--1266533	16	2.5	15	84	12	51	28	5	0	65	1.14
1267086--1267119	12	2.8	12	90	0	50	55	29	0	14	1.40
1267245--1267298	24	2.2	24	93	0	90	20	18	20	40	1.91
1269560--1269595	18	2.0	18	94	0	63	55	25	2	16	1.55
1269914--1269953	20	2.0	20	100	0	80	20	20	25	35	1.96
1270044--1270093	25	2.0	25	88	0	73	28	6	20	46	1.74
1270479--1270515	18	2.1	18	89	0	56	32	5	10	51	1.60
1270471--1270523	24	2.2	24	86	0	70	35	3	13	47	1.61
1270825--1270911	39	2.2	39	95	0	156	48	20	13	17	1.81
1272682--1272723	21	2.0	21	81	9	50	23	14	35	26	1.93
1275431--1275482	25	2.1	25	82	13	63	44	0	0	55	0.99
1275574--1275647	35	2.1	35	100	0	148	29	14	31	24	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1279755--1279786	15	2.1	15	94	0	55	25	6	3	65	1.31
1282448--1282498	23	2.3	24	83	12	65	45	0	0	54	0.99
1282460--1282506	10	4.5	10	78	17	51	40	0	0	59	0.97
1282448--1282504	22	2.6	24	81	13	61	45	0	0	54	0.99
1282440--1282513	33	2.3	32	82	13	91	47	0	0	52	1.00
1282459--1282539	32	2.5	33	80	13	87	46	1	0	51	1.08
1282579--1282638	17	3.5	17	71	13	52	50	1	1	46	1.21
1282681--1282734	23	2.3	23	83	0	63	53	1	1	42	1.22
1289618--1289662	24	2.0	22	83	12	56	24	4	2	68	1.19
1294507--1294551	19	2.5	18	89	7	65	33	11	13	42	1.79
1294517--1294572	19	2.9	19	89	2	76	39	14	10	35	1.81
1295646--1295689	21	2.2	20	84	12	54	54	0	2	43	1.12
1301031--1301109	30	2.6	29	75	15	88	56	10	16	16	1.65
1306542--1306586	13	3.4	13	79	14	56	40	0	0	60	0.97
1306813--1306878	19	3.5	19	72	20	59	40	0	1	57	1.08
1306816--1306859	23	2.0	22	86	13	63	36	0	2	61	1.09
1306851--1307013	41	4.3	38	75	17	137	47	1	1	49	1.17
1306804--1306982	37	4.8	36	74	16	125	45	1	1	52	1.15
1307914--1307991	27	3.2	27	63	30	75	39	8	17	33	1.81
1307908--1307999	45	2.0	45	100	0	184	38	9	17	34	1.83
1308251--1308284	17	2.1	17	94	5	61	58	8	0	32	1.29
1308344--1308407	32	2.0	32	87	0	92	43	4	7	43	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1312615--1312641	2	13.5	2	100	0	54	51	0	48	0	1.00
1315183--1315261	27	3.0	27	68	12	67	46	3	1	48	1.28
1319129--1319189	16	3.9	15	79	14	61	59	0	0	40	0.98
1319129--1319238	27	3.8	28	78	9	96	58	0	0	40	1.11
1319280--1319320	21	2.0	21	85	9	57	58	0	2	39	1.11
1325702--1325760	18	3.4	16	84	11	55	33	1	0	64	1.04
1325702--1325820	16	7.4	16	71	20	79	33	2	0	63	1.14
1325703--1325805	33	3.3	30	82	12	120	33	2	0	63	1.10
1325721--1325814	13	7.5	13	72	21	67	32	2	1	63	1.13
1331748--1331784	2	18.5	2	100	0	74	48	0	51	0	1.00
1338964--1339004	16	2.6	16	88	3	57	29	17	12	41	1.85
1339700--1339759	29	2.1	28	87	3	84	46	5	5	43	1.47
1345799--1345832	2	17.0	2	100	0	68	50	0	50	0	1.00
1350032--1350211	60	3.0	60	77	11	179	41	5	20	32	1.75
1350100--1350192	29	3.1	29	66	11	71	44	3	19	33	1.67
1350666--1350712	2	23.5	2	100	0	94	51	0	0	48	1.00
1352044--1352109	31	2.1	31	94	0	114	36	13	0	50	1.42
1354160--1354189	14	2.1	14	93	0	51	30	6	6	56	1.51
1362404--1362596	52	3.8	51	81	4	210	47	13	12	25	1.80
1364456--1364490	5	7.4	5	87	12	56	80	0	0	20	0.72
1364432--1364489	23	2.5	22	80	5	62	72	1	3	22	1.09
1365090--1365142	21	2.5	21	84	0	61	20	45	11	22	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1366056--1366299	84	3.0	80	82	5	281	25	20	23	30	1.99
1366042--1366317	84	3.3	83	81	5	261	24	20	23	31	1.98
1366480--1368200	106	16.3	106	92	2	2697	23	18	24	33	1.97
1371836--1371870	5	7.4	5	87	12	56	80	0	0	20	0.72
1371812--1371869	23	2.5	22	80	5	62	72	1	3	22	1.09
1372470--1372522	21	2.5	21	84	0	61	20	45	11	22	1.83
1375005--1375052	21	2.2	22	81	3	62	35	35	16	12	1.87
1379513--1379661	60	2.5	60	82	5	174	42	4	21	30	1.73
1382454--1382721	20	13.2	20	79	13	248	42	22	19	16	1.89
1382816--1382867	6	8.7	6	97	0	95	30	51	17	0	1.45
1383366--1383440	6	12.5	6	100	0	150	0	16	50	33	1.45
1383536--1383826	40	7.1	40	78	11	254	17	19	22	41	1.90
1383543--1383724	20	8.8	20	82	12	201	18	19	25	36	1.94
1383544--1383729	64	3.0	64	84	7	208	17	19	24	38	1.93
1383536--1383826	20	14.2	20	78	10	198	17	19	22	41	1.90
1384758--1384816	31	1.9	30	86	3	82	57	1	1	38	1.19
1385920--1385951	14	2.3	14	94	0	55	0	59	0	40	0.97
1397611--1397667	24	2.4	24	100	0	114	50	0	3	45	1.18
1399529--1399567	17	2.4	17	95	4	71	51	5	0	43	1.24
1402434--1402476	22	2.0	21	86	8	61	74	0	0	25	0.82
1409097--1409126	15	1.9	16	93	6	53	40	3	6	50	1.45
1410605--1410756	60	2.5	59	75	6	144	38	7	21	32	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1410740--1410888	60	2.5	59	77	10	160	48	4	13	34	1.61
1411126--1411216	31	3.0	30	69	15	89	37	16	8	37	1.80
1412339--1412521	39	4.7	39	87	5	262	24	14	10	49	1.76
1412339--1412521	78	2.3	78	93	1	305	24	14	10	49	1.76
1413224--1413278	23	2.5	21	81	18	67	27	1	0	70	0.97
1414455--1414495	6	6.8	6	94	0	73	51	0	0	48	1.00
1418322--1419006	84	8.3	82	79	4	707	29	25	21	23	1.99
1418317--1419006	165	4.2	165	89	1	936	29	25	21	23	1.99
1418322--1419006	249	2.8	248	80	4	684	29	25	21	23	1.99
1424264--1424937	84	8.1	82	80	5	732	29	25	20	23	1.99

Tables:   1   2   3   4   5   6   7