genome.fa.s422.2.7.7.80.10.50.1000.5.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: VEPZ01000422.1 Hibiscus syriacus cultivar Beakdansim tig00000773_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2457469

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  5  of  12  ( 1325 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)
841884--841938	22	2.5	22	81	0	74	38	14	14	32	1.87
842305--842416	54	2.1	54	93	0	188	21	24	16	37	1.94
844478--844695	114	1.9	114	91	1	357	30	19	15	35	1.92
846818--846874	10	5.7	10	73	8	53	3	21	0	75	0.95
846812--846877	20	3.3	20	73	0	60	3	21	0	75	0.93
846812--846877	10	6.6	10	73	0	51	3	21	0	75	0.93
854415--854466	3	17.3	3	83	0	68	67	0	1	30	1.02
858469--858504	18	2.1	18	89	5	56	25	0	0	75	0.81
858469--858520	17	3.1	16	81	10	52	26	0	3	69	1.06
864378--864706	165	2.0	164	96	1	606	33	7	16	42	1.77
865080--865127	15	3.1	16	76	11	55	37	2	0	60	1.09
871890--871956	29	2.3	29	89	2	100	19	23	19	37	1.94
871902--871963	29	2.2	28	97	2	115	17	24	17	40	1.91
872689--872881	96	2.0	96	100	0	386	27	11	17	43	1.84
873023--873124	54	1.9	53	93	2	177	44	14	9	31	1.78
875931--876028	7	12.9	8	75	22	54	59	0	0	40	0.98
875946--876000	7	8.0	7	79	4	67	63	0	0	36	0.95
875956--876026	2	39.5	2	75	20	59	56	0	0	43	0.99
875919--875993	34	2.2	34	95	0	132	60	0	0	40	0.97
875949--876024	14	5.4	14	82	6	82	57	0	0	42	0.98
877979--878035	25	2.3	25	100	0	114	7	0	36	56	1.27
880213--880242	14	2.1	14	93	0	51	53	16	13	16	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
884967--885074	17	5.9	17	70	18	65	63	2	2	30	1.22
886220--886979	105	7.3	105	91	3	1128	22	17	26	33	1.96
886220--886979	207	3.6	207	90	2	1141	22	17	26	33	1.96
887583--887740	68	2.4	66	84	6	203	36	8	22	32	1.85
887716--887838	36	3.4	36	80	6	149	39	13	21	24	1.90
889420--889462	18	2.4	19	81	14	56	0	13	6	79	0.93
908106--908190	37	2.3	37	95	4	154	40	29	22	8	1.83
912560--912625	30	2.2	30	86	0	87	10	30	24	34	1.89
912812--912842	16	2.0	16	93	6	55	54	0	12	32	1.38
915089--915157	34	2.1	33	84	7	88	37	15	14	31	1.88
918867--918896	13	2.3	13	100	0	60	40	0	0	60	0.97
919681--919725	19	2.3	20	81	14	58	60	0	4	35	1.17
920902--920955	3	18.3	3	81	11	67	59	0	1	38	1.08
921816--921879	31	2.1	31	100	0	128	28	12	15	43	1.83
926516--926542	13	2.1	13	100	0	54	33	22	22	22	1.97
929090--929150	24	2.5	24	86	5	77	45	6	19	27	1.75
935370--935425	21	2.6	22	91	5	96	17	44	21	16	1.86
940122--940201	32	2.5	32	97	0	151	37	26	16	20	1.93
946102--946375	102	2.8	98	87	6	401	29	21	18	30	1.97
957737--957797	23	2.6	22	77	10	68	40	4	3	50	1.40
964388--964433	15	3.3	15	76	14	53	56	0	2	41	1.11
965379--965411	17	1.9	17	88	11	50	6	21	12	60	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
965628--965669	16	2.6	16	100	0	84	16	19	57	7	1.62
965768--965798	2	15.5	2	100	0	62	48	0	0	51	1.00
965800--965865	3	22.0	3	90	0	87	59	0	0	40	0.98
966962--967210	127	1.9	129	84	8	328	23	21	15	39	1.92
971306--971415	29	3.8	29	75	13	82	42	13	0	42	1.50
976347--976460	47	2.4	47	89	0	165	38	20	15	25	1.92
977054--977091	19	2.0	20	94	5	69	47	10	21	21	1.80
978108--978218	56	2.0	56	94	0	195	36	12	12	37	1.81
981721--981760	18	2.2	18	86	8	55	30	0	0	70	0.88
981923--981994	29	2.4	29	97	2	135	15	12	18	54	1.71
993750--993774	11	2.3	11	100	0	50	16	0	0	84	0.63
994972--995038	28	2.4	27	85	7	89	62	2	23	10	1.41
997670--997759	42	2.2	39	83	11	126	32	4	24	38	1.75
997680--997765	42	2.0	42	97	0	163	36	4	24	34	1.76
1007257--1007314	3	21.0	3	80	16	63	32	0	1	65	1.03
1007253--1007314	10	6.0	11	75	17	62	32	0	1	66	1.02
1009964--1010008	19	2.4	19	96	0	81	55	4	0	40	1.20
1019637--1019666	15	1.9	16	93	6	53	70	0	3	26	1.03
1019893--1019959	23	3.2	20	69	21	55	52	4	8	34	1.53
1020165--1020234	22	3.2	20	73	23	70	37	8	4	50	1.53
1022882--1023056	60	2.9	60	81	2	190	41	4	20	33	1.72
1027194--1027232	21	1.9	20	89	5	60	23	23	20	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1035570--1035619	25	2.0	25	88	0	73	6	34	8	52	1.55
1049905--1049930	5	5.2	5	100	0	52	0	19	57	23	1.40
1055059--1055116	23	2.5	23	97	0	107	37	22	18	20	1.94
1059532--1059625	15	6.3	15	81	4	111	53	1	1	44	1.14
1059550--1059625	31	2.5	31	93	6	129	52	1	0	46	1.08
1059613--1059713	22	4.5	22	73	7	94	39	0	7	52	1.31
1059633--1059668	14	2.5	14	90	4	54	38	0	0	61	0.96
1059550--1059668	15	7.5	15	76	15	105	47	0	1	50	1.17
1059648--1060029	32	12.4	31	73	21	247	36	0	10	52	1.40
1059648--1060221	54	10.4	54	71	21	381	35	0	11	52	1.40
1059648--1059997	188	1.8	194	89	7	561	37	0	10	52	1.39
1059751--1059965	80	2.6	85	88	6	316	36	0	10	52	1.40
1059859--1059901	22	2.0	22	100	0	86	39	0	9	51	1.34
1059890--1060006	14	7.5	14	66	20	63	37	0	7	54	1.29
1059885--1060029	64	2.3	64	98	0	281	36	0	10	53	1.35
1059976--1060206	80	2.9	80	96	0	417	33	0	13	52	1.41
1060134--1060184	14	3.1	17	70	18	54	33	0	11	54	1.37
1060236--1060294	31	1.9	31	96	0	109	42	8	6	42	1.61
1065257--1065301	22	2.0	22	86	0	63	31	4	2	62	1.27
1074327--1074375	18	2.8	17	77	17	55	40	12	2	44	1.53
1074603--1074635	13	2.5	13	95	5	57	30	0	0	69	0.88
1075235--1075266	13	2.4	13	94	5	55	46	6	28	18	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1077650--1077866	110	2.0	110	87	0	317	31	17	17	33	1.93
1083137--1083191	28	1.9	29	85	10	78	43	1	1	52	1.22
1089775--1089995	64	3.5	64	83	2	239	34	20	17	27	1.95
1090652--1090714	31	2.0	31	87	6	92	19	19	23	38	1.93
1093876--1094096	64	3.5	64	88	2	284	33	20	18	26	1.96
1094753--1094815	31	2.0	31	84	6	83	19	20	23	36	1.95
1099708--1099755	3	16.7	3	78	8	55	62	0	2	35	1.07
1100616--1100740	60	2.1	60	84	0	160	46	3	12	38	1.57
1102577--1102622	21	2.2	21	96	0	83	15	26	19	39	1.91
1102583--1102629	21	2.2	21	88	0	67	21	23	19	36	1.95
1103181--1103259	20	3.9	21	86	5	94	51	17	18	11	1.75
1103258--1103302	19	2.4	19	88	0	63	48	26	17	6	1.72
1103236--1103297	33	1.9	33	83	3	81	50	20	20	8	1.74
1103303--1103351	21	2.3	21	96	0	89	18	20	20	40	1.91
1103807--1103873	21	3.2	21	66	6	55	23	35	20	19	1.95
1103755--1103873	42	2.8	42	81	5	107	22	36	18	22	1.95
1105224--1105259	14	2.6	14	95	0	63	33	0	22	44	1.53
1105367--1105452	19	4.7	19	72	15	74	48	20	17	12	1.80
1105416--1105457	20	2.1	20	95	0	75	52	21	14	11	1.73
1105462--1105590	33	3.9	33	90	1	195	12	24	17	45	1.82
1105554--1105596	20	2.2	20	100	0	86	11	23	13	51	1.74
1105521--1105629	53	2.1	53	91	0	173	12	23	14	48	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1109037--1109075	20	2.0	19	95	5	69	35	20	17	25	1.95
1109042--1109085	20	2.2	20	88	8	63	40	15	20	22	1.90
1112592--1112693	52	2.0	52	84	7	136	50	0	0	48	1.07
1117713--1117781	34	2.0	34	97	0	129	27	11	15	44	1.81
1122498--1122551	2	27.0	2	100	0	108	50	0	0	50	1.00
1124409--1124443	3	12.3	3	88	11	56	71	0	0	28	0.86
1124409--1124449	9	4.9	8	91	5	55	70	0	0	29	0.87
1131972--1132031	23	2.6	23	79	10	68	33	16	13	36	1.88
1133352--1133405	26	2.1	26	100	0	108	42	22	22	12	1.87
1137940--1138168	115	2.0	115	85	1	307	42	9	16	31	1.79

Tables:   1   2   3   4   5   6   7   8   9   10   11   12