genome.fa.s8554.2.7.7.80.10.50.1000.5.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: VEPZ01008554.1 Hibiscus syriacus cultivar Beakdansim tig00111458_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3217407

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

This is table  5  of  10  ( 1197 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)
995316--995353	17	2.2	17	90	0	58	52	2	13	31	1.54
995894--995967	31	2.5	28	79	10	85	43	5	10	40	1.63
996386--996455	33	2.1	33	89	5	106	25	27	14	32	1.94
996894--996933	20	2.0	20	90	0	62	22	17	37	22	1.94
997179--997234	18	2.8	20	84	12	80	46	8	12	32	1.73
998317--998376	23	2.6	23	89	0	84	26	25	28	20	1.99
1001692--1001825	61	2.2	61	91	0	232	22	24	22	30	1.99
1001814--1001906	20	4.6	20	78	2	105	15	20	22	41	1.89
1001789--1001906	61	1.9	61	94	0	209	17	19	22	39	1.92
1001898--1001950	22	2.4	22	93	0	88	18	16	26	37	1.93
1002049--1002093	6	7.5	6	100	0	90	33	51	15	0	1.44
1002584--1002624	5	7.6	5	97	2	55	0	19	53	26	1.45
1002587--1002646	6	10.5	6	94	1	90	1	16	51	30	1.54
1002718--1002783	19	3.3	19	72	12	69	40	19	19	19	1.91
1014871--1014907	19	2.0	19	89	5	58	64	2	10	21	1.37
1015945--1015973	12	2.4	12	100	0	58	58	0	0	41	0.98
1015930--1015965	18	1.9	19	88	5	56	55	0	0	44	0.99
1016300--1016381	42	2.0	42	90	0	128	39	20	18	21	1.93
1023026--1023112	45	1.9	45	81	6	104	29	21	11	36	1.89
1024331--1024366	16	2.1	18	90	10	58	66	0	2	30	1.06
1024520--1024551	2	16.0	2	100	0	64	50	0	0	50	1.00
1025721--1025749	12	2.4	12	100	0	58	58	0	0	41	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1025706--1025741	18	1.9	19	88	5	56	55	2	0	41	1.14
1026200--1026279	24	3.4	24	84	1	99	22	26	20	31	1.98
1030853--1030889	18	2.1	18	100	0	74	16	5	21	56	1.59
1031689--1031740	24	2.2	24	86	3	70	17	30	21	30	1.96
1033531--1033582	22	2.4	22	93	0	86	44	13	9	32	1.76
1034099--1034140	13	3.2	13	100	0	84	35	0	16	47	1.47
1036391--1036427	18	2.1	18	100	0	74	16	5	21	56	1.59
1036821--1036852	10	3.0	11	90	9	57	37	0	0	62	0.95
1037825--1038969	290	4.0	291	91	4	1903	50	17	18	13	1.79
1040356--1040442	43	2.0	43	100	0	174	34	20	22	21	1.97
1044397--1044506	32	3.4	32	88	0	148	34	20	8	36	1.83
1045039--1045080	21	2.0	22	85	4	59	14	9	19	57	1.64
1047383--1047492	32	3.4	32	82	7	125	35	21	7	35	1.81
1047499--1047573	32	2.3	32	77	8	80	38	17	10	33	1.84
1047446--1047573	64	2.0	64	80	6	143	37	16	10	35	1.84
1052054--1052187	32	4.2	32	77	1	117	26	18	16	38	1.92
1057489--1057538	23	2.2	23	89	7	75	54	10	22	14	1.69
1068287--1068321	18	1.9	18	88	11	54	80	0	20	0	0.72
1071474--1071525	21	2.6	19	75	6	50	28	15	7	48	1.73
1074060--1074184	49	2.6	49	92	0	205	24	21	16	37	1.93
1076095--1076136	15	2.8	15	88	0	66	33	21	14	30	1.93
1077908--1077948	17	2.5	17	84	15	59	31	29	14	24	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1085505--1085559	25	2.2	25	100	0	110	36	14	20	29	1.92
1095749--1095788	19	2.0	20	90	4	64	65	0	15	20	1.28
1100017--1100075	13	4.7	12	78	15	57	3	18	1	76	1.02
1100019--1100075	19	2.9	19	71	23	55	3	19	1	75	1.04
1100346--1100385	19	2.0	20	90	4	64	65	0	15	20	1.28
1103482--1103525	17	2.6	17	100	0	88	31	34	11	22	1.90
1109262--1109315	27	2.0	27	85	3	74	33	3	7	55	1.45
1124576--1124630	28	1.9	28	88	3	83	56	10	0	32	1.34
1124591--1124685	28	3.4	27	80	10	93	60	11	3	25	1.46
1124560--1124685	29	4.5	29	77	9	109	61	9	2	26	1.39
1127954--1128202	127	2.0	127	93	1	428	35	5	27	31	1.79
1128945--1129661	46	15.5	46	82	6	639	43	10	21	23	1.84
1129025--1129392	118	3.1	117	84	5	460	43	11	22	22	1.85
1128979--1129480	164	3.1	164	89	1	738	44	11	21	23	1.84
1128945--1129576	210	3.0	206	85	6	849	43	10	21	23	1.84
1129072--1129431	118	3.1	117	85	4	469	44	11	21	23	1.84
1128947--1129575	26	27.0	25	68	22	250	44	10	21	23	1.83
1135316--1135370	3	19.0	3	88	7	87	30	0	1	67	1.01
1138910--1138943	13	2.5	14	90	4	52	44	5	23	26	1.76
1139340--1139490	44	3.4	44	92	3	232	33	21	5	39	1.77
1142594--1142632	20	2.0	20	85	10	53	30	0	15	53	1.42
1143720--1143786	26	2.7	26	82	8	79	50	0	2	46	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1145288--1145362	3	24.7	3	84	8	98	62	0	0	37	0.95
1145311--1145371	23	2.6	23	87	7	70	65	1	0	32	1.02
1145609--1145658	17	3.0	17	72	16	50	22	20	10	48	1.79
1145745--1145936	92	2.1	92	80	6	208	28	17	16	37	1.91
1145837--1146440	113	5.3	113	94	1	971	27	20	14	38	1.91
1146775--1146880	52	2.0	52	100	0	212	33	16	13	36	1.88
1147411--1148071	94	7.0	94	93	0	1083	34	19	14	30	1.92
1147411--1148071	281	2.3	283	91	1	1087	34	19	14	30	1.92
1150208--1150249	2	21.0	2	100	0	84	50	0	0	50	1.00
1153207--1153260	14	3.8	14	82	2	54	51	9	12	25	1.70
1155386--1155435	23	2.0	26	85	11	70	52	0	2	46	1.12
1156651--1156732	3	26.7	3	87	4	101	59	0	0	40	0.97
1158204--1158247	20	2.2	20	88	8	63	79	9	9	2	1.02
1167402--1167435	17	2.0	17	94	0	59	35	5	20	38	1.77
1172013--1172087	26	3.0	24	79	11	80	25	24	16	34	1.95
1173368--1173406	20	2.0	20	89	0	60	41	25	0	33	1.56
1177798--1177848	4	12.8	4	91	0	57	50	9	0	39	1.35
1178353--1178563	117	1.8	117	89	2	334	39	22	13	24	1.90
1178606--1178719	26	4.5	26	83	4	133	27	22	17	32	1.96
1178606--1178719	50	2.2	50	83	6	131	27	22	17	32	1.96
1182905--1182945	21	1.9	22	95	5	75	41	24	9	24	1.85
1190951--1190996	21	2.1	22	84	11	60	28	13	4	54	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1196837--1196864	14	2.0	14	100	0	56	28	14	14	42	1.84
1198487--1198519	15	2.2	15	89	10	50	81	0	15	3	0.80
1199517--1199547	10	3.0	10	90	9	53	0	22	0	77	0.77
1199517--1199547	11	2.9	11	95	4	55	0	22	0	77	0.77
1204136--1204192	29	2.0	30	93	6	100	31	5	17	45	1.71
1204272--1204329	21	2.8	21	89	0	98	20	39	17	22	1.92
1207630--1207689	29	2.0	30	90	6	95	33	8	16	41	1.78
1207770--1207827	21	2.8	21	86	0	80	22	36	18	22	1.95
1207769--1207868	42	2.4	41	83	9	123	26	33	18	23	1.97
1208321--1208390	34	2.1	32	86	5	95	31	15	30	22	1.95
1210359--1210404	18	2.5	19	75	10	51	47	8	13	30	1.72
1210389--1210479	17	5.3	17	77	1	74	34	12	18	35	1.88
1210391--1210488	51	1.9	51	87	4	144	32	10	17	39	1.83
1217603--1217642	2	20.0	2	94	0	71	47	0	0	52	1.00
1218646--1218718	3	24.7	3	97	2	139	34	0	0	65	0.93
1219055--1219108	22	2.4	23	93	3	92	24	9	35	31	1.87
1219058--1219117	22	2.7	22	87	7	68	33	8	35	23	1.85
1220122--1220305	30	6.2	30	78	6	106	20	13	8	58	1.60
1220136--1220298	59	2.8	60	77	9	190	19	14	7	58	1.59
1223924--1224017	31	2.9	32	81	10	86	74	7	18	0	1.04
1223937--1224016	24	3.4	23	85	14	103	78	6	15	0	0.93
1223937--1224016	11	6.9	11	85	14	92	78	6	15	0	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1223939--1224007	25	2.8	25	84	6	95	76	7	15	0	0.99
1223936--1224016	12	7.0	11	76	13	65	79	6	14	0	0.92
1227387--1227425	11	3.5	11	89	3	60	2	15	0	82	0.79
1237971--1237999	2	14.5	2	100	0	58	48	0	0	51	1.00
1239731--1239784	15	3.8	15	70	20	53	33	0	0	66	0.92
1239732--1239785	13	3.9	14	73	22	51	31	0	0	68	0.90
1239736--1239785	24	2.2	21	89	10	73	32	0	0	68	0.90
1239747--1239786	12	3.4	12	82	3	55	30	0	0	70	0.88
1239830--1239933	33	3.2	33	86	5	156	44	19	7	28	1.78
1240326--1240364	14	2.9	14	82	17	55	35	0	0	64	0.94

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