genome.fa.s6691.2.7.7.80.10.50.1000.5.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: VEPZ01006691.1 Hibiscus syriacus cultivar Beakdansim tig00016637_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1195339

Tables:   1   2   3   4   5   

This is table  5  of  5  ( 578 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)
1039365--1040098	105	7.2	105	78	8	737	33	25	20	20	1.97
1039365--1040098	203	3.6	203	90	2	1121	33	25	20	20	1.97
1040560--1040587	3	9.3	3	100	0	56	32	0	0	67	0.91
1046493--1046538	23	2.0	23	83	8	58	54	13	2	30	1.50
1055376--1055417	21	2.0	21	85	0	57	33	21	19	26	1.97
1055413--1055480	21	3.2	21	93	0	118	23	26	22	27	1.99
1055391--1055481	42	2.2	43	78	9	98	25	25	20	28	1.99
1056154--1056223	21	3.4	21	94	2	124	28	21	27	22	1.99
1056213--1056269	21	2.7	21	83	0	78	29	21	22	26	1.99
1064265--1064301	18	2.1	18	100	0	74	27	10	10	51	1.70
1067434--1067492	27	2.3	27	82	5	68	47	0	8	44	1.33
1067469--1067511	17	2.6	16	85	10	59	53	0	4	41	1.21
1067465--1067511	18	2.7	17	87	6	67	53	0	6	40	1.27
1069655--1069686	2	16.0	2	100	0	64	50	0	0	50	1.00
1070720--1070750	15	2.1	15	93	0	53	54	0	0	45	0.99
1071563--1071619	24	2.4	24	91	2	89	42	24	21	12	1.87
1073175--1073246	29	2.4	30	88	2	101	30	27	20	20	1.98
1073232--1073296	31	2.1	31	88	0	94	36	23	18	21	1.95
1078470--1078571	30	3.4	30	91	1	143	31	25	21	21	1.98
1078478--1078607	30	4.3	30	87	1	118	31	25	21	21	1.98
1078476--1078596	60	2.0	60	82	3	145	32	25	22	19	1.98
1078557--1078621	31	2.1	31	85	5	87	35	23	20	21	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1085568--1085632	22	3.0	22	95	4	114	30	15	21	32	1.94
1089803--1089904	52	2.0	52	98	0	195	37	19	10	32	1.86
1092282--1092332	20	2.5	20	93	0	84	41	11	9	37	1.75
1093432--1093476	22	2.0	22	100	0	90	28	17	17	35	1.93
1095082--1095129	21	2.5	18	81	18	69	39	8	20	31	1.82
1095088--1095134	21	2.2	21	100	0	94	42	10	17	29	1.82
1100783--1100843	27	2.2	28	91	2	97	50	18	6	24	1.70
1101927--1102032	32	3.3	31	81	2	95	16	21	30	31	1.96
1101960--1102078	32	3.7	31	81	8	114	21	27	24	26	1.99
1103353--1103423	15	4.9	14	73	14	54	42	0	0	57	0.98
1107490--1107526	10	3.9	10	82	10	51	59	0	2	37	1.12
1107556--1107599	22	2.0	22	86	13	63	63	0	2	34	1.07
1109063--1109120	30	2.0	29	86	10	82	39	3	10	46	1.55
1109411--1109450	3	13.3	3	94	0	71	30	0	2	67	1.04
1111246--1111342	21	4.7	21	85	2	142	40	18	25	15	1.90
1111269--1111403	41	3.3	41	82	6	132	37	21	21	19	1.94
1111331--1111465	20	6.7	20	80	7	112	32	24	17	25	1.97
1111229--1111380	62	2.5	60	87	8	191	39	19	23	17	1.92
1111328--1111465	41	3.4	41	78	6	154	34	23	17	24	1.96
1111633--1111676	22	2.0	22	90	0	70	22	45	13	18	1.84
1111917--1111980	20	3.2	20	84	0	74	15	18	20	45	1.86
1113295--1113339	18	2.5	18	81	0	63	26	44	13	15	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1113825--1113877	20	2.7	20	81	0	70	37	22	22	16	1.94
1113844--1113946	19	5.6	19	77	12	99	42	21	22	13	1.87
1113958--1114015	14	3.9	14	79	16	71	8	17	25	48	1.75
1113942--1114031	32	2.8	33	91	3	146	10	17	24	47	1.78
1113953--1114031	14	4.8	17	71	22	62	10	18	24	46	1.80
1114018--1114071	20	2.7	20	88	0	81	14	20	24	40	1.90
1115927--1115962	14	2.6	14	90	0	54	30	0	22	47	1.52
1116079--1116146	19	3.8	19	83	14	92	47	17	23	11	1.81
1116165--1116222	20	2.9	20	92	0	98	17	22	22	37	1.93
1117507--1117531	12	2.1	12	100	0	50	72	0	28	0	0.86
1119826--1119953	19	7.5	19	65	24	88	42	18	23	14	1.88
1119826--1119949	33	3.8	33	86	4	187	42	18	23	15	1.88
1119826--1119956	66	2.0	66	95	0	235	41	18	22	16	1.89
1119964--1120020	14	3.7	14	75	20	60	10	24	21	43	1.83
1119949--1120038	33	2.7	33	91	0	144	14	22	20	43	1.87
1119978--1120038	19	3.5	19	72	21	60	13	22	19	44	1.85
1120145--1120181	14	2.6	14	91	0	65	45	24	0	29	1.53
1121576--1121655	42	1.9	42	84	0	106	22	17	38	21	1.93
1123657--1123835	19	9.8	19	76	13	144	44	20	22	12	1.84
1123682--1123780	33	3.0	33	90	1	153	39	22	26	12	1.89
1123752--1123840	19	4.7	19	94	0	151	47	20	20	12	1.82
1123836--1123883	19	2.5	20	75	3	53	10	14	25	50	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1124400--1124452	20	2.7	20	85	5	63	26	18	26	28	1.98
1124461--1124514	20	2.7	20	91	0	90	25	16	24	33	1.96
1125753--1125894	42	3.4	42	95	0	248	35	23	19	21	1.96
1125802--1125969	63	2.7	61	90	5	214	35	24	19	20	1.95
1125753--1125915	42	3.9	41	91	3	220	34	23	20	21	1.97
1133959--1133992	17	2.0	17	94	0	59	0	38	0	61	0.96
1135307--1135367	22	2.8	22	87	5	79	27	19	24	27	1.99
1136202--1136238	2	19.0	2	94	5	67	51	0	0	48	1.00
1136840--1136897	24	2.5	22	86	5	71	29	27	18	24	1.98
1142468--1142497	3	10.0	3	100	0	60	66	0	33	0	0.92
1150796--1150829	12	2.8	12	100	0	68	17	47	0	35	1.48
1155925--1155958	12	2.8	12	95	0	59	17	50	0	32	1.47
1160738--1160767	12	2.4	13	94	5	53	56	0	40	3	1.16
1162465--1162516	23	2.3	23	93	0	86	61	17	9	11	1.55
1162448--1162508	13	4.8	13	70	22	58	60	19	9	9	1.56
1162481--1162526	23	2.0	23	83	8	58	60	21	8	8	1.53
1167806--1167830	2	12.5	2	100	0	50	48	0	0	52	1.00
1170810--1170884	21	3.5	21	75	14	82	48	1	1	49	1.18
1170810--1170895	21	4.0	22	71	14	74	50	1	1	47	1.16
1170852--1170914	29	2.1	29	82	8	72	58	0	0	41	0.98
1172663--1172715	9	5.9	9	76	8	54	54	24	11	9	1.65
1172758--1172846	27	3.1	27	77	17	97	57	22	16	3	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1172755--1172829	33	2.3	33	90	0	114	57	22	17	2	1.52
1172791--1172846	27	2.1	27	96	0	103	57	19	17	5	1.59
1177480--1177574	39	2.4	39	80	5	109	38	9	15	35	1.80
1180195--1180463	43	6.2	43	72	13	135	30	19	20	30	1.97
1180800--1180908	21	5.2	21	83	2	103	1	40	17	40	1.60
1190575--1190735	41	4.0	41	84	7	213	30	19	14	34	1.92
1190576--1190734	82	2.0	81	92	3	266	30	20	14	35	1.92
1190764--1190959	42	4.7	42	76	7	166	23	23	19	32	1.98
1191194--1191245	25	2.1	25	100	0	104	32	19	11	36	1.87
1191298--1191560	130	2.0	131	99	0	519	42	6	14	36	1.70

Tables:   1   2   3   4   5

The End!