genome.fa.s8958.2.7.7.80.10.50.1000.6.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: VEPZ01008958.1 Hibiscus syriacus cultivar Beakdansim tig00112289_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2490255

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

This is table  6  of  11  ( 1296 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)
1054542--1054603	17	3.8	16	75	14	63	64	0	6	29	1.18
1054539--1054607	33	2.0	35	94	5	124	63	0	5	30	1.17
1054591--1054652	26	2.3	27	78	13	67	54	11	4	29	1.56
1055497--1055562	24	3.0	24	76	14	79	0	30	0	69	0.88
1055497--1055562	21	3.0	22	77	22	75	0	30	0	69	0.88
1055545--1055579	11	3.3	11	92	4	54	0	14	8	77	0.99
1061001--1061064	23	2.8	23	90	0	101	26	26	28	18	1.98
1061075--1061297	103	2.2	103	98	0	428	37	25	12	25	1.90
1062035--1062258	64	3.5	64	82	6	242	27	19	20	33	1.96
1066735--1066798	23	2.8	23	90	0	101	26	26	28	18	1.98
1066809--1067031	103	2.2	103	99	0	437	36	24	13	25	1.91
1067783--1068007	64	3.5	64	83	7	244	28	19	20	32	1.96
1072656--1072770	59	1.9	59	91	0	185	37	14	8	39	1.77
1073311--1073353	18	2.3	18	84	4	50	39	0	2	58	1.11
1073493--1073534	18	2.4	18	88	4	59	59	0	2	38	1.10
1076427--1076513	42	2.1	42	91	0	138	51	9	9	29	1.65
1078133--1078299	20	8.5	19	82	6	208	26	8	22	41	1.83
1078133--1078304	39	4.4	40	87	2	217	28	9	22	40	1.84
1078133--1078304	79	2.2	79	85	5	233	28	9	22	40	1.84
1078315--1078366	19	2.7	19	81	0	68	34	11	17	36	1.86
1078399--1078650	40	6.3	39	66	15	122	35	14	21	28	1.92
1078399--1078650	80	3.2	80	86	1	346	35	14	21	28	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1079044--1079074	2	15.5	2	100	0	62	48	0	0	51	1.00
1084159--1084204	22	2.2	22	84	7	60	17	2	21	58	1.49
1084181--1084284	40	2.6	39	84	1	127	28	8	18	44	1.79
1084199--1084295	19	4.9	20	81	6	108	31	11	16	40	1.84
1084181--1084289	20	5.6	19	76	6	92	27	8	20	44	1.80
1084280--1084359	19	4.2	19	83	0	88	28	13	21	36	1.92
1084376--1084602	40	5.7	39	70	9	154	35	14	22	28	1.93
1084362--1084607	80	3.1	79	84	1	303	36	14	21	27	1.92
1088526--1088558	11	3.0	11	100	0	66	27	27	27	18	1.98
1089023--1089082	24	2.6	23	78	17	70	55	0	1	43	1.10
1089255--1089301	21	2.3	20	85	14	69	59	0	0	40	0.97
1090855--1090889	16	2.2	16	100	0	70	14	11	34	40	1.82
1093235--1093352	51	2.4	50	85	4	175	46	11	12	28	1.77
1093338--1093378	20	2.0	20	100	0	82	41	19	14	24	1.89
1093545--1093652	20	5.4	20	72	13	71	29	25	12	33	1.92
1093523--1093671	40	3.8	39	78	7	149	31	24	12	31	1.92
1093523--1093672	19	7.6	20	70	15	89	32	24	12	31	1.92
1094440--1094473	12	2.8	12	90	0	50	55	29	0	14	1.40
1094593--1094652	24	2.5	24	88	0	93	25	16	18	40	1.91
1096620--1096685	23	2.9	23	86	0	78	25	21	28	24	1.99
1097343--1097385	21	2.0	21	81	0	50	16	25	30	27	1.97
1103427--1103495	23	3.0	23	78	0	75	27	24	26	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1105770--1105810	12	3.4	12	86	0	55	56	21	2	19	1.54
1105769--1105803	6	5.8	6	86	0	52	60	20	2	17	1.49
1106160--1106293	64	2.1	64	90	0	205	51	17	2	28	1.60
1107642--1107756	21	5.5	21	78	4	106	22	20	37	19	1.94
1107642--1107764	42	2.9	42	86	0	174	23	20	37	18	1.94
1108108--1108151	21	2.1	21	83	8	54	31	38	11	18	1.86
1109893--1109955	20	3.2	20	88	2	92	53	19	15	11	1.71
1109886--1109957	20	3.6	20	83	7	83	52	19	15	12	1.74
1110264--1110340	22	3.5	22	85	0	100	18	14	44	23	1.86
1110444--1110478	19	1.9	18	88	11	54	40	17	20	22	1.92
1110496--1110547	20	2.6	20	84	0	77	26	19	19	34	1.95
1110733--1110983	52	4.9	51	77	7	208	48	13	10	26	1.76
1112568--1112607	20	2.0	20	95	0	71	47	15	12	25	1.80
1113479--1113524	22	2.2	20	88	7	65	65	0	0	34	0.93
1113776--1113846	31	2.3	31	82	0	88	18	18	29	33	1.95
1116460--1116497	20	1.9	19	89	5	58	60	13	0	26	1.33
1117081--1117113	6	5.5	6	100	0	66	0	51	0	48	1.00
1117872--1118038	84	2.0	84	96	1	309	25	13	18	42	1.86
1120901--1120944	21	2.2	20	87	4	61	11	22	43	22	1.85
1121570--1121594	10	2.5	10	100	0	50	64	20	0	16	1.30
1121556--1121616	31	2.0	31	83	6	79	57	24	1	16	1.48
1123867--1123922	20	2.7	21	77	2	69	23	32	25	19	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1131229--1131254	8	3.2	8	100	0	52	53	11	23	11	1.69
1133508--1133553	24	1.9	24	90	0	74	23	2	0	73	0.94
1133508--1133559	7	6.9	7	77	16	50	23	1	0	75	0.91
1137413--1137869	184	2.5	182	80	3	518	35	15	15	32	1.90
1150681--1151079	197	2.0	198	97	2	759	26	21	22	29	1.99
1160420--1160463	6	7.3	6	84	0	61	47	20	2	29	1.62
1160420--1160475	18	3.1	18	84	0	67	44	23	5	26	1.74
1160477--1160521	6	7.5	6	87	0	54	35	33	13	17	1.89
1160431--1160524	12	7.8	12	82	0	71	40	28	9	21	1.84
1160804--1161044	118	2.0	119	91	8	393	53	4	19	22	1.64
1171279--1171339	30	2.0	30	83	0	77	36	26	19	18	1.94
1175181--1175220	20	2.0	20	95	0	71	35	12	10	42	1.76
1177975--1178001	13	2.1	13	100	0	54	29	22	22	25	1.99
1190235--1190347	32	3.5	32	82	0	118	47	11	9	30	1.72
1191466--1191563	49	2.0	49	94	4	171	33	15	27	23	1.95
1191606--1191638	15	2.2	15	100	0	66	51	6	6	36	1.51
1191868--1191926	24	2.5	24	75	13	59	52	5	5	37	1.46
1193673--1193700	2	14.0	2	100	0	56	50	0	0	50	1.00
1199412--1199459	19	2.5	20	86	3	62	47	6	14	31	1.69
1204360--1204485	36	3.5	36	83	3	119	42	5	9	42	1.60
1204397--1204485	36	2.4	36	90	5	135	48	4	5	41	1.47
1204507--1204558	5	11.4	5	83	8	51	19	1	0	78	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1204507--1204559	18	2.7	20	86	13	74	18	1	0	79	0.83
1208568--1208613	15	3.1	15	84	6	58	28	6	19	45	1.75
1211049--1211399	174	2.0	176	98	1	679	34	18	24	23	1.96
1213385--1213445	30	2.0	30	87	0	86	47	6	9	36	1.63
1214569--1214667	49	2.0	50	96	2	182	33	16	27	23	1.95
1214710--1214742	15	2.2	15	100	0	66	51	6	6	36	1.51
1214978--1215036	24	2.5	24	75	13	59	52	5	5	37	1.46
1218225--1218263	18	2.1	19	85	4	53	64	2	5	28	1.28
1226215--1226252	16	2.5	16	87	8	53	0	21	0	78	0.74
1226244--1226287	17	2.6	16	82	7	52	11	9	9	70	1.34
1230810--1230996	31	6.0	31	94	1	313	37	22	19	20	1.94
1231863--1231908	21	2.2	21	88	0	65	15	26	28	30	1.96
1238587--1238621	16	2.1	17	89	5	54	77	0	5	17	0.96
1238733--1238820	5	17.0	5	72	16	56	71	1	4	22	1.11
1239893--1239940	14	3.3	14	85	5	60	66	0	2	31	1.03
1240029--1240103	30	2.5	30	84	2	98	52	6	1	40	1.36
1240069--1240341	38	7.2	38	82	10	310	43	7	4	43	1.53
1240076--1240318	38	6.4	37	84	9	314	43	7	4	44	1.52
1240325--1240395	2	36.0	2	94	2	126	49	0	1	49	1.09
1240934--1241092	79	2.0	81	81	4	189	23	19	24	32	1.98
1241134--1241216	33	2.5	33	94	0	148	31	9	20	38	1.85
1241269--1241544	37	7.8	36	75	13	245	38	14	21	25	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1241288--1241351	19	3.4	19	69	22	55	39	14	21	25	1.91
1241269--1241519	71	3.6	72	74	13	272	39	13	21	26	1.90
1241440--1241544	36	2.9	37	86	9	128	34	15	22	27	1.94
1242826--1243088	95	2.7	95	83	3	321	33	18	15	32	1.93
1246743--1246798	28	2.0	29	85	3	78	64	3	16	16	1.43
1246778--1246820	16	2.7	15	82	13	50	72	0	9	18	1.11
1246923--1247016	18	5.3	18	71	16	72	71	2	3	23	1.12
1246936--1246985	23	2.1	23	81	3	55	70	2	6	22	1.20
1248093--1248132	3	12.3	3	87	10	53	67	0	2	30	1.04
1248093--1248135	10	4.3	10	78	21	54	67	0	2	30	1.03

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