genome.fa.s2126.2.7.7.80.10.50.1000.6.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: VEPZ01002126.1 Hibiscus syriacus cultivar Beakdansim tig00004355_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1482737

Tables:   1   2   3   4   5   6   7   8   

This is table  6  of  8  ( 903 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)
993595--993644	24	2.0	25	88	3	75	68	0	4	28	1.08
993699--993780	29	2.7	30	77	9	85	53	7	12	26	1.64
1008775--1008808	15	2.3	15	94	0	59	32	32	14	20	1.93
1009324--1009479	64	2.4	64	81	8	192	26	18	19	35	1.95
1013140--1013172	17	1.9	17	93	0	57	66	0	0	33	0.92
1019899--1019928	2	15.0	2	100	0	60	50	0	0	50	1.00
1021059--1021091	16	2.1	16	94	0	57	36	6	0	57	1.23
1021257--1021298	18	2.4	17	88	4	66	35	0	0	64	0.94
1025179--1025204	13	2.0	13	100	0	52	38	15	23	23	1.92
1025632--1025665	15	2.3	15	90	5	52	61	0	0	38	0.96
1032306--1032382	18	4.2	18	89	3	118	32	7	15	44	1.75
1034914--1034977	34	1.9	33	83	3	83	18	12	1	67	1.31
1038325--1038358	15	2.2	16	89	5	52	52	0	17	29	1.45
1042963--1043083	22	5.7	22	81	7	160	27	31	23	18	1.97
1042943--1043084	40	3.5	40	83	7	194	28	30	22	18	1.97
1049861--1049911	18	2.8	18	87	0	66	33	37	11	17	1.86
1049905--1049977	22	3.3	22	86	3	85	27	30	23	19	1.98
1051719--1051953	117	2.0	116	99	0	461	36	9	25	28	1.87
1053812--1053850	11	3.7	11	80	13	55	64	7	10	17	1.48
1053816--1053861	20	2.2	20	92	3	74	60	4	13	21	1.49
1054752--1054830	37	2.2	37	97	2	151	34	10	13	41	1.79
1059153--1059207	27	2.0	27	86	6	76	50	0	1	47	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1059263--1059304	20	2.2	19	86	4	57	64	2	0	33	1.07
1059171--1059396	120	1.9	119	80	4	267	46	7	7	38	1.63
1059397--1059436	19	2.0	20	85	9	55	60	2	7	30	1.38
1059493--1059522	3	10.0	3	92	0	51	63	0	3	33	1.11
1060869--1060933	3	21.0	3	81	12	78	64	0	0	35	0.94
1060869--1060935	19	3.4	19	82	12	82	65	0	0	34	0.93
1060879--1060933	28	1.9	29	92	7	87	65	0	0	34	0.93
1061266--1061819	112	4.9	112	82	8	730	30	19	12	37	1.89
1061266--1061819	225	2.5	225	96	0	1013	30	19	12	37	1.89
1063344--1063390	23	2.0	23	88	8	69	0	21	0	78	0.75
1066028--1066061	17	1.9	18	88	5	52	44	20	17	17	1.87
1073766--1073799	17	1.9	17	88	5	50	64	2	2	29	1.22
1074276--1074329	26	2.2	24	86	6	72	50	0	1	48	1.11
1074380--1074427	17	2.8	17	79	14	53	62	2	0	35	1.07
1074631--1074680	25	1.9	27	88	8	77	70	8	0	22	1.13
1076131--1076202	3	23.0	3	81	13	83	65	0	0	34	0.93
1076131--1076203	28	2.7	26	83	10	94	65	0	0	34	0.93
1079073--1079208	19	7.2	19	77	1	130	31	10	25	32	1.89
1079073--1079186	57	2.0	57	84	0	147	30	11	27	30	1.91
1079083--1079220	57	2.4	57	79	4	145	33	10	23	32	1.88
1079579--1079812	36	6.5	36	82	0	243	30	16	17	35	1.92
1079579--1079809	72	3.2	72	81	2	268	30	16	17	35	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1084868--1084911	20	2.2	20	95	0	79	36	20	22	20	1.95
1089548--1089577	15	2.1	14	93	6	51	83	0	13	3	0.77
1090559--1090698	36	3.9	36	83	3	183	28	12	19	40	1.87
1091457--1091499	16	2.8	16	96	3	79	18	16	11	53	1.72
1098567--1098627	20	2.9	20	80	9	68	22	36	26	14	1.93
1099013--1099060	24	2.0	24	88	8	71	60	4	4	31	1.35
1100870--1100902	11	3.0	11	100	0	66	18	0	27	54	1.44
1102453--1102496	19	2.3	19	92	0	70	47	4	18	29	1.68
1102631--1102751	31	3.9	30	82	4	143	25	19	22	33	1.97
1105727--1105752	3	8.7	3	100	0	52	65	0	0	34	0.93
1106540--1106570	16	2.0	15	93	6	53	48	12	19	19	1.81
1107674--1107704	15	2.1	15	100	0	62	45	0	12	41	1.42
1109279--1109321	16	2.6	16	77	3	50	53	4	2	39	1.34
1110327--1110708	183	2.1	184	90	3	599	46	7	3	42	1.47
1110787--1110859	35	2.1	34	82	10	85	34	8	6	50	1.59
1116422--1116521	51	2.0	51	95	0	182	33	10	14	43	1.78
1121450--1122427	330	2.9	332	91	3	1550	43	7	4	43	1.53
1122640--1122691	21	2.5	21	81	3	61	38	19	25	17	1.93
1122680--1122774	20	4.7	20	76	7	84	31	25	18	24	1.98
1122962--1123005	22	2.0	22	86	0	61	22	40	15	20	1.90
1123268--1123325	20	3.0	20	87	2	73	17	18	22	41	1.90
1123462--1123516	25	2.2	24	78	15	58	20	9	18	52	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1124645--1124689	18	2.5	18	88	0	72	26	44	15	13	1.83
1125225--1125282	14	3.9	14	79	16	71	48	24	17	10	1.78
1125209--1125299	32	2.8	33	93	3	157	47	20	18	13	1.82
1125209--1125304	19	5.6	19	68	25	79	45	20	19	13	1.84
1125316--1125373	14	3.9	14	75	16	62	10	17	22	50	1.76
1125311--1125422	33	3.4	33	90	1	172	13	17	20	48	1.81
1125409--1125463	20	2.7	20	85	2	74	14	23	23	38	1.92
1127333--1127368	14	2.6	14	90	0	54	30	0	22	47	1.52
1127505--1127565	19	3.5	17	85	10	56	47	16	21	14	1.82
1127505--1127553	19	2.6	19	96	0	89	48	14	20	16	1.80
1127591--1127686	20	4.8	20	72	10	88	17	19	20	41	1.90
1127591--1127686	40	2.4	41	78	5	106	17	19	20	41	1.90
1127901--1127992	20	4.6	20	73	2	67	21	18	19	40	1.92
1127980--1128029	21	2.4	21	89	0	73	22	22	16	40	1.91
1128226--1128259	12	2.9	12	86	4	52	17	41	5	35	1.74
1128809--1128855	24	2.0	24	91	0	76	29	19	17	34	1.94
1129043--1129078	12	3.0	12	100	0	72	75	0	25	0	0.81
1131369--1131598	19	13.7	19	61	24	88	43	19	20	16	1.89
1131368--1131599	33	7.0	33	84	5	281	42	18	20	17	1.89
1131370--1131594	66	3.4	66	91	3	330	42	19	20	17	1.89
1131369--1131601	99	2.4	99	91	1	378	42	18	20	18	1.89
1131603--1131674	19	3.8	19	98	0	135	12	20	20	45	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1131594--1131674	38	2.1	38	93	0	135	14	19	20	44	1.86
1131781--1131817	14	2.6	14	91	0	65	45	24	0	29	1.53
1132055--1132119	19	3.7	19	72	19	68	12	21	20	46	1.83
1134408--1134432	12	2.1	12	100	0	50	0	28	0	72	0.86
1135437--1135488	21	2.5	21	87	3	70	38	17	23	21	1.93
1135477--1135550	20	3.7	20	75	10	69	36	22	18	21	1.95
1135474--1135565	41	2.3	40	84	1	121	40	21	16	21	1.91
1135497--1135564	20	3.3	20	77	2	73	41	22	16	20	1.90
1135764--1135793	14	2.1	14	93	0	51	43	23	23	10	1.83
1135778--1135845	20	3.4	20	72	8	66	39	22	20	17	1.92
1135762--1135865	40	2.9	34	78	15	118	41	21	21	16	1.90
1135905--1135953	19	2.6	19	100	0	98	14	20	16	48	1.80
1135877--1135915	14	2.8	14	100	0	78	7	20	20	51	1.72
1136596--1136651	24	2.5	21	76	18	58	50	7	1	41	1.40
1137612--1137650	18	2.2	18	86	9	53	41	7	5	46	1.55
1137901--1137949	19	2.6	20	87	12	77	38	18	0	42	1.50
1138331--1139537	182	6.6	182	87	2	1653	27	14	13	44	1.83
1138331--1139537	363	3.3	363	89	2	1800	27	14	13	44	1.83
1138331--1139537	545	2.2	545	86	2	1692	27	14	13	44	1.83
1139463--1139501	20	1.9	21	89	5	62	15	15	23	46	1.83
1142389--1142418	13	2.2	14	94	5	53	40	13	26	20	1.89
1145376--1145439	12	5.9	11	80	15	64	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1145388--1145444	3	19.0	3	88	0	78	59	0	0	40	0.97
1145376--1145442	15	4.7	14	80	15	84	56	0	0	43	0.99
1145604--1146131	76	6.9	76	97	0	984	35	22	18	23	1.96
1146096--1146159	28	2.2	28	94	2	110	40	21	18	18	1.91
1146809--1146863	22	2.5	22	93	0	101	40	14	10	34	1.81
1149091--1149314	114	2.0	114	91	0	367	29	20	16	33	1.94
1151462--1151516	9	6.3	9	70	8	51	3	16	0	80	0.86
1151465--1151516	16	3.2	16	83	2	59	3	17	0	78	0.89
1154439--1154479	7	5.9	7	83	11	57	58	9	17	14	1.62
1158762--1158815	3	18.0	3	88	0	81	61	0	0	38	0.96

Tables:   1   2   3   4   5   6   7   8