genome.fa.s3208.2.7.7.80.10.50.1000.5.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: VEPZ01003208.1 Hibiscus syriacus cultivar Beakdansim tig00006753_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1278004

Tables:   1   2   3   4   5   6   7   

This is table  5  of  7  ( 729 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)
925707--925778	29	2.5	29	93	0	117	38	12	9	38	1.76
926081--926233	68	2.3	67	88	4	218	18	28	26	26	1.98
926213--926255	21	2.0	21	86	0	59	16	25	27	30	1.97
926082--926255	68	2.6	67	85	7	201	18	28	25	27	1.98
932296--932363	22	3.1	22	100	0	136	26	26	27	19	1.99
932580--932639	30	2.0	31	90	3	95	33	21	6	38	1.80
932654--932725	29	2.5	29	93	0	117	38	12	9	38	1.76
933028--933200	67	2.6	66	86	4	213	19	27	26	27	1.99
933158--933200	21	2.0	21	90	0	68	18	25	25	30	1.98
937940--938000	20	3.1	20	83	6	63	8	1	19	70	1.21
937948--938035	5	17.6	5	82	4	61	12	3	15	68	1.34
938843--938893	18	2.8	18	85	11	77	31	27	21	19	1.97
939491--939610	64	1.9	63	82	1	150	24	18	18	39	1.92
943775--943839	32	2.1	32	85	2	87	26	9	12	52	1.68
944012--944104	29	3.2	28	72	15	98	46	4	0	49	1.21
944081--944206	26	4.8	25	72	20	82	43	4	0	51	1.22
944012--944131	60	2.0	58	85	9	163	45	4	0	50	1.21
944075--944182	24	4.3	24	76	16	87	43	2	0	53	1.15
944124--944181	22	2.6	22	75	8	55	41	1	0	56	1.09
944141--944188	23	2.1	23	84	7	62	45	2	0	52	1.12
968080--968125	21	2.2	21	96	0	83	15	21	28	34	1.94
969663--969694	10	3.2	10	100	0	64	62	0	0	37	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
969663--969714	10	4.9	11	85	2	54	61	0	1	36	1.07
969685--969746	27	2.4	25	81	5	70	54	4	4	35	1.43
982001--982606	226	2.7	224	87	3	853	40	13	14	31	1.85
982604--982959	130	2.7	130	83	7	418	30	14	13	41	1.83
982947--983317	178	2.1	176	85	4	487	33	14	13	37	1.86
983343--983700	198	1.8	199	83	6	485	33	15	13	36	1.87
985550--985589	18	2.2	18	86	0	53	35	15	27	22	1.94
986112--987506	201	6.9	200	85	2	1688	34	11	12	40	1.81
986662--986708	21	2.3	21	85	10	62	42	10	8	38	1.70
987201--987241	21	2.0	21	85	0	55	26	7	12	53	1.64
990565--990616	27	1.9	27	84	7	70	11	11	3	73	1.23
1000765--1001161	54	7.4	55	86	4	540	27	17	20	35	1.95
1005384--1005411	2	14.0	2	100	0	56	50	0	0	50	1.00
1006028--1006586	54	10.4	54	87	1	755	28	17	19	35	1.94
1009306--1009472	64	2.6	64	80	13	166	25	22	19	32	1.97
1021147--1021213	29	2.3	29	86	0	89	41	23	7	26	1.81
1021170--1021300	57	2.3	59	85	5	187	44	21	8	25	1.80
1021192--1021300	29	3.8	29	93	1	184	45	19	9	25	1.79
1021305--1021339	13	2.8	12	91	8	61	20	22	42	14	1.88
1024849--1024954	29	3.7	29	94	0	176	45	22	8	23	1.80
1024829--1024954	58	2.2	58	86	1	182	44	23	7	24	1.80
1024967--1025007	18	2.3	18	95	0	73	9	19	51	19	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1026216--1026319	45	2.3	45	96	0	190	20	22	15	42	1.89
1026294--1026423	47	2.8	47	88	2	183	21	20	10	47	1.80
1026460--1027208	68	11.0	68	88	2	1081	30	23	14	30	1.95
1027406--1027621	55	3.9	55	89	5	303	34	19	11	34	1.88
1028058--1028105	18	2.6	18	86	6	60	25	29	12	33	1.92
1030199--1030238	2	20.0	2	100	0	80	50	0	0	50	1.00
1032019--1032163	46	3.2	46	91	4	240	20	21	11	47	1.80
1032198--1032996	68	11.8	68	89	1	1219	30	25	13	30	1.94
1033218--1033465	55	4.5	55	90	2	349	33	18	13	35	1.90
1040729--1041067	44	7.8	43	89	4	459	19	25	22	31	1.98
1040731--1041067	131	2.6	129	86	7	473	19	26	22	32	1.98
1042949--1043000	21	2.5	21	100	0	104	23	11	21	44	1.84
1043112--1043516	200	2.0	198	83	5	498	30	14	12	42	1.82
1043488--1043580	20	4.6	20	75	10	64	25	10	13	49	1.75
1044308--1044346	2	19.5	2	100	0	78	51	0	0	48	1.00
1044604--1044648	2	23.0	2	82	13	58	48	2	2	46	1.26
1048990--1049052	33	1.9	33	96	0	117	25	20	22	31	1.98
1051745--1051808	26	2.5	26	84	5	85	62	1	0	35	1.05
1051761--1051810	19	2.6	18	79	14	55	60	0	0	40	0.97
1051760--1051810	23	2.3	22	86	13	77	60	0	0	39	0.97
1054346--1054825	45	10.8	45	76	8	340	41	17	16	24	1.90
1054411--1054830	134	3.1	134	77	11	432	42	17	15	24	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1054366--1054852	179	2.7	177	80	7	542	41	17	16	24	1.89
1057657--1057685	3	9.7	3	100	0	58	65	0	0	34	0.93
1060634--1060675	19	2.2	19	87	8	59	57	14	16	11	1.66
1065627--1065666	13	3.1	13	86	10	55	77	0	2	20	0.88
1067105--1067134	14	2.2	14	94	5	53	0	20	0	80	0.72
1069355--1069393	10	3.9	10	83	9	53	69	2	0	28	1.02
1074578--1074621	19	2.3	19	92	0	70	40	20	11	27	1.86
1074586--1074624	19	2.1	19	100	0	78	41	15	10	33	1.81
1083836--1084046	68	3.0	69	85	8	246	31	22	9	36	1.86
1083905--1084349	81	5.6	80	87	5	616	29	22	11	37	1.88
1083905--1084349	160	2.8	160	89	4	645	29	22	11	37	1.88
1084337--1084487	68	2.2	69	92	1	250	28	25	17	28	1.98
1085168--1085357	95	2.0	95	82	6	233	24	21	16	37	1.93
1086239--1086423	65	2.9	65	80	11	202	28	18	22	31	1.97
1087426--1087498	36	2.0	36	100	0	146	24	19	2	53	1.58
1090451--1091042	81	7.3	81	87	0	797	27	22	11	38	1.88
1090992--1091177	68	2.7	68	91	1	284	29	26	13	30	1.94
1091394--1091538	56	2.6	53	84	7	166	34	21	11	32	1.89
1091923--1092105	95	1.9	95	82	2	224	22	18	17	40	1.91
1095348--1095418	36	1.9	37	83	8	92	16	14	22	46	1.83
1095684--1095724	17	2.3	18	87	4	57	29	4	2	63	1.28
1098078--1098112	3	11.7	3	100	0	70	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1112959--1113025	20	3.0	24	72	20	72	50	10	1	37	1.46
1112983--1113028	19	2.4	18	83	16	58	52	8	0	39	1.33
1126637--1126665	2	14.5	2	100	0	58	51	0	0	48	1.00
1128283--1128316	3	11.0	3	93	6	59	64	0	0	35	0.94
1128283--1128330	10	4.9	10	90	7	57	62	2	0	35	1.07
1128515--1128925	137	3.0	137	82	7	490	27	16	27	27	1.97
1128928--1129195	64	4.0	65	85	10	328	36	14	18	30	1.91
1131987--1132098	13	9.0	12	72	16	70	1	10	5	82	0.91
1131988--1132099	34	3.4	33	89	7	156	1	10	6	81	0.94
1131988--1132099	11	10.0	12	72	18	91	1	10	6	81	0.94
1135765--1135806	2	21.0	2	90	0	66	50	4	0	45	1.23
1139066--1139134	32	2.2	32	97	2	131	23	20	5	50	1.69
1141917--1141963	19	2.4	20	82	10	53	59	10	0	29	1.31
1145916--1145976	3	20.0	3	93	3	104	63	0	1	34	1.04
1147253--1147289	19	1.9	19	94	0	65	32	29	16	21	1.95
1147315--1147404	20	4.4	20	75	8	83	28	24	20	26	1.99
1148221--1148274	24	2.2	24	93	0	90	20	18	20	40	1.91
1150604--1150883	140	2.0	140	98	0	542	28	13	15	43	1.84
1150857--1151047	20	9.9	20	82	6	223	34	22	19	24	1.97
1150885--1151096	54	3.8	54	78	9	212	34	22	19	23	1.96
1151086--1151143	20	2.9	20	84	0	80	13	15	25	44	1.83
1151218--1151326	36	3.3	36	69	21	119	53	15	3	27	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1151247--1151356	27	3.7	27	72	19	103	51	18	1	28	1.56
1151195--1151427	63	3.5	64	88	8	292	49	17	3	29	1.62
1152732--1152825	42	2.2	42	86	3	127	20	19	38	22	1.94
1152732--1152846	21	5.5	21	72	4	88	21	18	37	22	1.94
1152745--1152850	42	2.5	42	80	3	115	23	17	37	20	1.94
1153330--1153372	20	2.2	20	91	0	68	46	25	13	13	1.81
1153393--1153444	19	2.7	19	84	0	68	50	23	17	9	1.75
1153451--1153488	20	1.9	20	94	0	67	13	21	18	47	1.82
1153455--1153530	33	2.3	34	90	2	118	14	21	19	44	1.86
1153522--1153590	20	3.5	19	86	7	84	20	20	23	36	1.95

Tables:   1   2   3   4   5   6   7