genome.fa.s8001.2.7.7.80.10.50.1000.5.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: VEPZ01008001.1 Hibiscus syriacus cultivar Beakdansim tig00110458_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3902382

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

This is table  5  of  18  ( 2081 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)
948932--949272	128	2.7	127	94	1	601	34	21	23	20	1.97
949350--949389	8	5.1	8	81	6	55	37	27	0	35	1.57
952374--952420	13	3.7	13	77	5	51	42	2	0	55	1.12
953965--954011	21	2.2	21	92	0	85	21	25	17	36	1.94
953900--954017	20	5.8	21	73	5	71	28	27	16	27	1.97
954002--954113	40	2.8	40	87	5	147	41	25	15	16	1.88
954002--954119	20	5.9	20	79	6	132	42	25	16	16	1.88
954229--954279	22	2.3	22	89	0	84	19	43	15	21	1.88
954669--954719	20	2.5	20	80	0	66	15	15	19	49	1.80
955767--955941	66	2.6	65	90	8	255	28	2	17	52	1.56
956099--956149	20	2.6	19	84	9	66	21	15	21	41	1.90
956434--956469	18	2.0	18	94	0	63	19	2	22	55	1.56
957846--957894	25	2.0	25	91	0	80	46	20	6	26	1.73
957945--957998	20	2.7	20	74	5	56	40	18	18	22	1.91
958007--958045	20	2.0	20	94	0	69	41	20	20	17	1.91
958380--958415	18	2.0	18	88	0	54	16	5	25	52	1.65
960349--960392	11	4.0	11	84	0	61	29	22	6	40	1.80
963894--963963	23	3.2	23	86	12	110	22	0	32	44	1.53
963894--963953	20	2.8	20	92	7	93	23	0	30	46	1.52
963993--964056	30	2.1	30	94	0	110	20	26	14	39	1.90
967822--967909	45	1.9	46	90	6	144	26	19	26	28	1.99
967929--967967	20	2.0	20	89	0	60	20	15	33	30	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
968600--968627	2	14.0	2	100	0	56	50	0	0	50	1.00
968668--968696	14	2.0	15	93	6	51	62	27	3	6	1.37
970619--970699	24	3.5	24	77	11	98	33	22	22	22	1.97
970596--970718	44	2.8	43	78	8	124	28	20	25	26	1.99
975179--975292	20	5.7	20	82	6	104	32	25	17	24	1.97
975176--975292	61	1.9	61	85	0	162	34	24	17	23	1.96
975806--975872	19	3.5	19	81	2	80	52	23	14	8	1.70
975868--976052	19	10.1	19	75	14	156	11	21	22	44	1.84
975868--976052	33	5.1	38	77	12	156	11	21	22	44	1.84
975995--976052	20	2.9	20	80	10	64	13	24	18	43	1.87
978112--978178	21	3.2	21	66	6	55	23	35	20	19	1.95
978060--978178	42	2.8	42	81	5	107	22	36	18	22	1.95
979531--979566	14	2.6	14	95	0	63	30	0	25	44	1.54
979745--979895	19	8.7	19	63	21	71	15	22	19	41	1.90
979749--979875	33	3.9	32	85	8	184	15	22	18	42	1.89
979742--979872	66	2.0	66	96	0	244	16	22	18	41	1.89
982164--982188	12	2.1	12	100	0	50	0	28	0	72	0.86
982363--982416	24	2.2	24	90	0	81	38	20	16	24	1.92
983455--983532	20	3.9	20	93	0	120	38	23	20	17	1.93
983517--983558	14	3.0	14	96	0	75	42	23	21	11	1.86
983565--983628	19	3.8	18	84	15	84	14	21	18	45	1.85
985592--985662	19	3.7	19	79	7	63	40	22	21	15	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
985592--985647	20	2.9	19	84	5	76	37	21	23	17	1.94
985647--985701	13	3.8	13	74	21	56	45	27	18	9	1.79
985631--985706	31	2.5	31	97	0	143	44	25	19	10	1.82
985590--985688	18	5.6	18	73	17	73	41	23	21	14	1.89
985642--985694	18	3.2	18	66	33	55	49	22	16	11	1.78
985658--985716	18	3.6	18	67	21	56	49	27	16	6	1.71
985717--985804	30	2.8	31	88	10	135	12	18	21	47	1.81
985713--985776	18	3.7	18	76	18	73	12	20	21	45	1.84
985789--985843	20	2.8	19	83	8	65	16	23	23	36	1.94
986319--986363	18	2.5	18	85	0	63	13	15	42	28	1.85
987952--987995	22	2.0	22	86	8	63	18	13	43	25	1.86
988183--988296	20	5.7	20	80	6	113	24	18	25	31	1.97
988183--988296	40	2.8	41	82	1	131	24	18	25	31	1.97
988163--988300	41	3.4	41	79	2	161	23	17	23	34	1.96
988183--988359	41	4.3	41	80	5	121	22	20	22	34	1.97
988286--988378	20	4.6	20	75	4	87	19	24	17	38	1.92
988286--988381	41	2.3	41	96	0	174	19	23	16	39	1.92
990313--990351	20	2.0	20	89	0	60	20	15	33	30	1.94
992483--992511	13	2.2	13	100	0	58	48	17	6	27	1.72
995593--995638	24	1.9	24	86	8	67	28	2	2	67	1.14
997040--997236	30	6.6	30	98	0	376	24	29	12	32	1.92
1002232--1002280	17	3.0	17	85	8	66	34	0	4	61	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1002235--1002286	24	2.1	25	82	3	61	30	0	1	67	1.02
1002233--1002281	16	3.1	16	85	8	64	34	0	2	63	1.06
1004507--1004550	13	3.4	13	80	0	52	15	2	13	68	1.31
1017058--1017121	31	2.1	31	96	0	119	21	29	15	32	1.95
1019833--1019870	20	2.0	19	85	10	51	44	26	0	28	1.54
1021115--1021191	23	3.3	23	98	0	145	22	0	32	45	1.53
1021221--1021288	30	2.3	30	94	0	118	19	27	14	38	1.91
1024969--1025025	29	2.0	29	89	0	87	47	3	8	40	1.52
1026008--1026044	19	1.9	19	88	0	56	51	0	10	37	1.37
1026116--1026145	2	15.0	2	100	0	60	50	0	0	50	1.00
1027384--1027594	95	2.2	93	84	5	255	39	7	13	39	1.72
1027950--1028064	60	1.9	58	86	6	160	53	9	12	25	1.68
1030232--1030263	16	2.0	16	93	0	55	53	0	6	40	1.26
1030787--1030821	2	17.5	2	100	0	70	51	0	0	48	1.00
1030999--1031040	16	2.6	17	88	7	61	23	11	19	45	1.83
1033401--1033459	31	1.9	31	92	0	100	40	6	10	42	1.65
1035438--1035479	2	21.0	2	100	0	84	50	0	0	50	1.00
1039814--1039937	67	1.9	67	81	6	155	32	16	7	43	1.76
1040151--1040396	21	11.8	21	77	9	106	21	20	21	36	1.96
1040176--1040396	42	5.3	41	84	6	209	22	19	21	36	1.95
1040294--1040406	21	5.4	21	96	0	199	23	23	19	32	1.97
1041502--1041585	21	4.0	21	92	0	141	34	21	22	21	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1041506--1041659	42	3.7	42	84	10	153	35	22	20	20	1.96
1041565--1041659	40	2.3	42	90	3	158	35	23	20	21	1.96
1041499--1041684	21	9.0	21	79	8	113	34	22	21	21	1.97
1042023--1042069	24	2.0	24	91	0	76	46	0	0	53	1.00
1043303--1043368	33	2.0	32	88	2	96	37	0	16	45	1.48
1058929--1058965	19	1.9	19	94	0	65	13	27	32	27	1.94
1067499--1067667	84	2.0	85	95	1	304	31	16	21	30	1.95
1067502--1067677	85	2.1	84	94	1	307	32	17	21	29	1.95
1068315--1068404	20	4.4	20	84	1	108	33	13	18	34	1.90
1084935--1085002	27	2.6	27	93	4	113	42	16	10	30	1.81
1088696--1088763	27	2.6	27	86	4	95	44	14	8	32	1.76
1091594--1091681	27	3.1	27	78	10	95	34	6	5	53	1.51
1101476--1101503	2	14.0	2	100	0	56	50	0	0	50	1.00
1102446--1102490	24	1.9	23	82	13	56	66	6	0	26	1.16
1102489--1102526	18	2.2	18	85	4	51	60	13	0	26	1.33
1103495--1103577	30	2.8	30	83	1	96	36	28	16	18	1.93
1103552--1103679	31	4.1	31	78	6	123	35	20	16	28	1.94
1105510--1105671	63	2.6	63	80	6	168	22	22	21	33	1.97
1108345--1108615	3	90.7	3	93	3	449	64	0	35	0	0.94
1113094--1113124	15	2.1	15	100	0	62	29	45	19	6	1.75
1119016--1119058	24	1.9	22	86	13	61	67	0	0	32	0.91
1119017--1119063	25	1.9	25	87	12	71	70	0	0	29	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1119093--1119122	13	2.2	14	94	5	53	83	0	0	16	0.65
1120529--1122017	105	14.3	106	87	4	2048	22	18	25	33	1.97
1120529--1122017	209	7.2	209	87	4	2030	22	18	25	33	1.97
1125616--1125675	25	2.3	27	75	21	65	70	0	5	25	1.08
1125621--1125685	26	2.5	27	78	9	64	70	1	4	23	1.14
1125697--1125726	13	2.2	14	94	5	53	83	0	0	16	0.65
1126675--1126859	91	2.0	91	96	0	343	35	11	12	40	1.80
1128856--1130846	1000	2.0	1000	100	0	3982	26	20	23	28	1.99
1133788--1133817	15	2.0	15	100	0	60	26	26	6	40	1.81
1139830--1139859	2	15.5	2	93	6	53	50	0	0	50	1.00

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