genome.fa.s8000.2.7.7.80.10.50.1000.6.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: VEPZ01008000.1 Hibiscus syriacus cultivar Beakdansim tig00110457_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1646480

Tables:   1   2   3   4   5   6   7   8   9   

This is table  6  of  9  ( 964 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)
1071606--1071630	13	1.9	13	100	0	50	20	24	40	16	1.91
1071611--1071657	18	2.6	18	89	0	76	10	21	48	19	1.78
1076745--1076799	8	6.5	8	85	12	67	25	25	34	14	1.94
1076763--1076796	15	2.3	15	100	0	68	26	26	35	11	1.91
1076794--1076854	5	11.0	5	80	19	68	6	21	54	18	1.66
1076786--1076854	23	3.0	23	100	0	138	8	21	52	17	1.71
1076765--1076854	46	2.0	45	84	8	119	13	22	47	16	1.81
1080015--1080043	14	2.0	15	93	6	51	31	0	0	68	0.89
1082190--1082231	7	6.0	7	81	8	50	14	16	14	54	1.71
1082190--1082231	15	3.0	14	83	10	50	14	16	14	54	1.71
1082291--1082350	27	2.3	27	85	2	86	20	11	8	60	1.57
1083985--1084018	2	17.0	2	100	0	68	50	0	0	50	1.00
1084323--1084354	17	1.9	16	93	6	55	84	0	15	0	0.63
1089095--1089215	22	5.5	22	89	0	188	33	13	12	40	1.82
1090009--1090181	74	2.4	73	89	1	247	35	16	16	31	1.91
1090082--1090798	113	6.3	113	91	2	1016	37	14	18	28	1.91
1090082--1090798	226	3.2	225	91	2	1118	37	14	18	28	1.91
1092885--1092911	2	13.5	2	100	0	54	48	0	0	51	1.00
1093201--1093229	14	2.0	15	93	6	51	31	0	0	68	0.89
1097931--1097998	31	2.2	31	86	0	91	29	10	10	50	1.69
1097758--1098068	150	2.1	150	97	0	586	30	13	14	41	1.84
1098343--1098385	17	2.4	19	81	14	56	27	0	0	72	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1098346--1098383	18	2.1	19	90	5	60	26	0	0	73	0.83
1098541--1098594	24	2.2	25	78	15	60	33	1	1	62	1.16
1098592--1098643	25	2.1	25	89	7	79	40	3	0	55	1.18
1105423--1105464	19	2.2	19	83	8	50	52	9	0	38	1.34
1107242--1107293	24	2.2	24	86	3	70	40	1	0	57	1.10
1113343--1113428	30	2.9	29	70	19	77	38	5	20	34	1.77
1115548--1115686	36	3.9	36	92	0	233	25	17	15	41	1.89
1122919--1123058	36	3.9	36	92	0	244	24	17	16	42	1.89
1139537--1139600	22	2.9	22	92	0	101	32	14	23	29	1.94
1139679--1139733	16	3.5	16	85	2	76	34	18	9	38	1.82
1139985--1140068	29	3.0	27	81	8	98	47	4	5	41	1.49
1142001--1142038	17	2.2	17	90	0	58	50	5	0	44	1.24
1146927--1147142	74	2.9	74	92	0	342	35	8	23	32	1.85
1146990--1147106	37	3.2	37	61	18	89	34	9	22	34	1.86
1149490--1149535	24	2.0	23	86	4	65	34	13	28	23	1.92
1150431--1150464	6	5.3	6	89	10	50	50	0	0	50	1.00
1153378--1153434	24	2.4	23	78	16	64	35	3	3	57	1.33
1161165--1161727	105	5.4	105	93	2	920	33	24	18	22	1.97
1161786--1161868	32	2.6	32	96	0	148	25	31	27	15	1.96
1163683--1163711	2	14.5	2	100	0	58	48	0	0	51	1.00
1163628--1163693	22	3.0	21	75	18	62	30	3	3	63	1.24
1171718--1171747	2	15.0	2	100	0	60	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1171957--1172033	21	3.7	21	75	0	73	40	20	15	23	1.91
1171945--1172033	42	2.1	42	87	0	124	40	20	13	25	1.89
1174385--1174432	20	2.4	20	96	0	87	47	14	6	31	1.69
1174848--1174881	7	4.9	7	85	0	50	23	11	2	61	1.43
1177225--1177271	12	3.7	12	81	15	58	46	17	19	17	1.84
1178130--1178169	21	1.9	21	94	0	71	30	15	7	47	1.72
1178164--1178306	33	4.6	32	78	13	154	32	6	15	44	1.73
1178685--1178740	15	3.6	15	79	9	67	32	12	12	42	1.80
1178704--1178737	18	1.9	18	94	5	61	38	11	11	38	1.79
1178831--1178862	16	2.0	17	88	11	50	43	21	21	12	1.86
1184771--1185001	117	2.0	117	90	1	365	24	23	17	33	1.96
1186401--1186437	15	2.3	17	86	9	51	56	16	10	16	1.66
1186530--1186570	18	2.2	18	86	8	55	78	2	14	4	1.03
1187131--1187171	17	2.4	17	91	4	64	34	2	9	53	1.47
1187672--1187708	2	19.0	2	94	5	67	51	0	0	48	1.00
1189324--1189465	36	4.0	36	90	0	214	21	24	19	34	1.96
1189324--1189465	71	2.0	72	88	1	214	21	24	19	34	1.96
1193861--1193953	22	4.2	22	81	0	87	33	21	17	27	1.96
1194215--1194261	20	2.5	19	82	6	60	23	17	23	36	1.95
1194807--1194856	2	25.0	2	100	0	100	50	0	0	50	1.00
1197729--1197851	31	4.0	31	94	2	203	37	22	19	20	1.94
1208713--1208982	68	4.0	68	80	8	320	29	11	11	48	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1209807--1210710	215	4.3	215	91	3	1449	50	8	13	27	1.70
1209807--1210710	423	2.1	423	91	3	1453	50	8	13	27	1.70
1210791--1210902	2	56.5	2	68	15	63	47	1	5	45	1.36
1210821--1210881	30	2.1	30	87	6	90	47	1	3	47	1.28
1210819--1210911	24	3.7	25	74	8	82	44	3	5	47	1.42
1210885--1210922	20	1.9	19	89	5	58	47	10	5	36	1.61
1210988--1211048	20	3.1	19	76	15	61	55	1	6	36	1.36
1211094--1211169	19	4.3	18	70	26	56	40	6	6	46	1.56
1211091--1211149	31	1.9	31	89	6	93	42	5	5	47	1.47
1211094--1211406	51	5.7	52	72	20	185	41	7	6	44	1.57
1211125--1211457	18	17.9	20	68	24	137	42	7	6	44	1.58
1211164--1211209	24	1.9	23	86	8	65	39	4	8	47	1.54
1211151--1211304	42	3.8	42	80	12	180	41	7	6	44	1.59
1211293--1211319	13	2.1	13	100	0	54	55	7	0	37	1.28
1211275--1211343	33	2.2	31	89	5	102	46	8	4	40	1.55
1211338--1211385	24	2.1	22	84	7	60	41	4	6	47	1.48
1211306--1211432	38	3.4	38	76	15	129	43	7	5	43	1.56
1211368--1211469	33	2.9	35	84	10	111	43	10	4	41	1.61
1211506--1211563	27	2.1	27	81	6	64	44	10	3	41	1.55
1211549--1211596	20	2.4	21	86	13	66	41	4	2	52	1.32
1211560--1211790	7	37.3	6	66	20	52	46	7	2	43	1.45
1211519--1211703	27	7.2	25	74	13	103	45	7	2	44	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1211519--1211677	47	3.3	48	75	18	125	44	8	3	44	1.49
1211691--1211873	18	10.6	18	70	14	125	43	7	5	43	1.56
1211731--1211822	33	2.7	33	89	3	130	42	7	5	44	1.56
1211560--1211790	2	112.0	2	64	22	52	46	7	2	43	1.45
1211764--1212035	58	5.0	51	81	11	294	42	8	7	41	1.63
1211766--1211989	109	2.0	112	86	6	310	41	8	8	41	1.64
1211964--1212001	18	2.1	18	100	0	76	50	5	5	39	1.48
1211764--1212035	109	2.5	105	81	10	309	42	8	7	41	1.63
1212439--1212774	124	2.7	122	89	4	485	25	27	8	37	1.85
1212888--1212953	34	2.0	33	93	3	114	33	33	0	33	1.58
1212951--1213105	6	26.5	6	69	7	77	48	38	3	9	1.53
1212950--1213160	17	12.0	18	72	5	110	46	37	4	11	1.60
1213098--1213153	12	4.8	12	78	10	62	46	32	5	16	1.69
1213109--1213175	24	2.8	24	86	2	82	46	34	5	13	1.68
1213404--1213428	2	12.5	2	100	0	50	48	0	0	52	1.00
1213429--1213902	31	15.3	31	89	1	718	25	4	23	46	1.72
1216231--1216291	20	3.0	20	82	0	68	16	9	16	57	1.64
1221305--1221473	39	4.3	39	76	8	155	41	11	7	39	1.71
1221537--1221862	58	5.7	58	79	7	310	43	12	7	35	1.72
1226802--1226844	18	2.2	21	80	19	58	4	30	0	65	1.13
1233342--1233378	19	1.9	19	88	0	56	64	0	0	35	0.94
1237955--1238025	20	3.6	20	86	3	99	28	19	16	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1238109--1238171	21	3.0	21	76	4	74	33	20	23	22	1.97
1238099--1238186	41	2.1	41	80	0	104	32	19	21	26	1.97
1244711--1244882	92	1.9	93	82	3	222	26	16	23	34	1.95
1249562--1249701	69	2.0	69	94	0	244	25	35	10	28	1.90
1252940--1253093	57	2.6	58	83	4	193	33	25	7	33	1.83
1256929--1256972	21	2.1	21	82	0	52	36	11	4	47	1.60
1257742--1257787	20	2.3	19	78	10	56	54	8	15	21	1.68
1258856--1258992	4	34.2	4	98	0	265	25	0	24	49	1.50
1259859--1261204	201	6.7	201	94	0	2386	36	13	16	33	1.88
1259859--1261204	604	2.2	604	95	0	2401	36	13	16	33	1.88

Tables:   1   2   3   4   5   6   7   8   9