genome.fa.s8259.2.7.7.80.10.50.1000.5.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: VEPZ01008259.1 Hibiscus syriacus cultivar Beakdansim tig00110912_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2373650

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

This is table  5  of  11  ( 1275 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)
1090735--1090770	16	2.2	16	100	0	72	41	5	27	25	1.77
1093945--1094037	44	2.1	43	84	2	114	27	23	21	26	1.99
1099135--1099163	14	2.1	14	93	6	51	41	3	6	48	1.47
1100914--1100953	19	2.1	19	86	13	55	72	2	7	17	1.19
1102446--1102640	85	2.3	85	84	1	248	29	20	16	32	1.95
1102846--1102942	48	2.0	48	89	0	149	41	19	10	28	1.84
1106732--1106891	65	2.5	65	85	7	211	27	17	24	30	1.97
1106732--1106933	65	3.1	64	77	14	209	26	17	24	31	1.97
1107402--1107430	2	14.5	2	100	0	58	51	0	0	48	1.00
1109600--1109680	23	3.6	22	78	8	92	25	24	24	24	2.00
1109603--1109699	44	2.2	44	83	7	117	26	22	23	26	2.00
1115498--1115705	65	3.2	65	79	12	214	26	18	25	30	1.98
1116445--1116522	40	2.0	40	94	0	138	23	21	26	28	1.99
1116527--1116577	24	2.1	24	96	0	93	35	21	13	29	1.92
1120501--1120541	20	2.0	20	100	0	82	51	0	24	24	1.49
1122710--1122828	40	3.0	40	94	0	211	19	17	31	31	1.95
1123877--1123908	13	2.5	13	94	0	55	34	12	28	25	1.92
1126897--1126946	10	5.0	10	82	0	55	26	30	0	44	1.55
1126985--1127023	18	2.2	18	90	4	62	33	0	5	61	1.18
1128117--1128156	21	1.9	22	90	10	66	12	5	40	42	1.64
1128261--1128342	41	2.0	41	86	9	114	29	25	23	21	1.99
1128269--1128342	20	3.7	20	83	3	78	31	24	22	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1128363--1128461	21	4.7	21	78	13	114	21	18	36	24	1.95
1128541--1128600	30	2.0	30	90	6	95	41	16	8	33	1.78
1131941--1132039	21	4.8	20	80	13	110	22	19	35	23	1.96
1132118--1132177	29	2.0	30	93	6	104	43	16	6	33	1.74
1133698--1133722	13	1.9	13	100	0	50	32	28	32	8	1.86
1133963--1134044	34	2.4	34	82	15	98	26	7	10	54	1.61
1137628--1137739	53	2.2	51	81	13	133	26	25	22	25	2.00
1143553--1143616	7	9.0	7	85	11	78	70	0	0	29	0.88
1143553--1143608	3	17.7	3	75	17	51	71	0	0	28	0.86
1143615--1143982	37	9.8	37	76	15	280	44	8	2	44	1.47
1143719--1143780	12	5.1	12	71	11	54	48	8	0	43	1.32
1144560--1144793	85	2.8	84	89	3	353	25	19	21	34	1.96
1149242--1149285	23	2.0	23	86	13	65	81	0	6	11	0.86
1150614--1151040	38	11.5	37	74	15	334	43	8	3	45	1.49
1150621--1150711	45	2.0	47	89	8	143	43	6	3	46	1.46
1150693--1150748	25	2.4	24	88	8	80	46	8	0	44	1.34
1150693--1150737	23	2.0	22	91	4	72	46	6	0	46	1.29
1150715--1151003	75	3.8	76	89	5	410	42	8	3	46	1.50
1150715--1151040	75	4.3	74	85	8	401	42	8	3	45	1.51
1152095--1152132	17	2.2	18	95	4	69	36	5	7	50	1.54
1152095--1152164	21	3.6	20	81	12	76	35	5	7	51	1.53
1152113--1152168	20	2.8	21	86	5	80	37	5	7	50	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1152303--1152368	30	2.2	30	83	5	80	65	12	1	21	1.34
1153296--1153370	29	2.6	28	83	6	87	34	5	8	52	1.54
1153290--1153378	29	3.1	28	74	9	81	31	4	8	55	1.51
1158687--1158834	76	2.0	75	85	4	201	27	6	10	56	1.58
1158915--1158955	18	2.3	18	80	12	50	12	17	0	70	1.16
1164953--1165130	90	2.0	90	90	0	284	44	6	10	38	1.66
1171689--1171854	90	1.8	90	93	0	287	45	6	10	37	1.64
1177139--1177183	20	2.2	21	88	11	67	42	11	4	42	1.60
1180465--1180546	21	3.9	21	74	16	71	25	32	24	17	1.96
1185086--1185144	28	2.1	28	90	0	91	27	13	28	30	1.94
1185097--1185156	28	2.1	28	84	0	75	28	15	25	31	1.95
1185257--1185475	57	3.8	57	91	2	318	30	20	21	27	1.98
1185198--1185475	28	9.8	29	69	10	153	30	20	22	26	1.98
1185191--1185351	85	1.9	85	88	5	245	32	18	22	26	1.97
1192832--1192865	7	4.9	7	85	0	50	38	14	2	44	1.61
1193685--1193735	2	26.0	2	88	4	77	47	0	3	49	1.20
1200714--1200973	81	3.2	81	78	5	274	30	21	10	38	1.87
1200942--1201002	29	2.1	29	90	0	95	22	22	9	44	1.82
1200863--1201083	110	2.0	110	88	1	327	31	23	9	36	1.86
1200784--1201164	191	2.0	190	89	0	573	30	22	10	36	1.88
1200971--1201265	81	3.7	81	88	1	432	31	22	10	34	1.89
1200971--1201265	161	1.8	162	89	0	466	31	22	10	34	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1201238--1201557	68	4.7	68	84	1	392	32	20	15	31	1.93
1212680--1212724	18	2.5	18	96	0	81	44	15	6	33	1.73
1214673--1214704	16	2.0	16	93	0	55	3	3	0	93	0.40
1214673--1214714	15	2.9	15	85	3	50	7	2	2	88	0.69
1214675--1214713	16	2.4	16	86	0	51	5	2	2	89	0.63
1216210--1216259	18	2.8	18	90	3	75	44	12	6	38	1.66
1217780--1217810	16	1.9	16	100	0	62	32	16	12	38	1.86
1219825--1219891	33	2.0	33	100	0	134	47	11	11	28	1.76
1220357--1220396	15	2.7	15	85	11	55	17	25	17	40	1.91
1221535--1221626	46	2.0	46	82	4	114	20	29	20	29	1.98
1222295--1222365	20	3.5	20	81	7	81	33	21	21	23	1.97
1222319--1222432	20	5.7	20	82	0	120	27	25	21	25	2.00
1222604--1222646	22	2.0	22	100	0	86	25	41	13	18	1.88
1223031--1223074	19	2.3	19	88	7	63	13	18	22	45	1.84
1223031--1223137	20	5.4	20	83	3	92	15	15	21	46	1.83
1224870--1224919	18	2.8	18	100	0	100	32	20	6	42	1.76
1225069--1225133	20	3.2	20	91	0	103	36	24	20	18	1.94
1225175--1225230	20	2.8	20	91	0	85	21	19	23	35	1.96
1225727--1225834	21	5.2	20	70	12	74	20	35	20	24	1.96
1227082--1227116	18	1.9	18	94	0	61	17	2	25	54	1.57
1229354--1229407	24	2.2	24	93	0	90	40	20	18	20	1.91
1230236--1230356	20	5.9	20	81	7	111	30	19	20	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1230304--1230345	22	1.9	22	95	0	75	35	19	23	21	1.96
1233251--1233360	55	2.0	55	94	0	193	26	23	17	32	1.96
1235934--1236022	30	3.0	30	89	0	133	15	29	26	28	1.96
1250921--1250965	21	2.1	21	91	0	72	40	17	4	37	1.70
1250960--1250996	18	2.1	18	89	0	56	51	10	2	35	1.51
1251025--1251060	19	2.0	18	89	10	56	41	8	5	44	1.58
1251186--1251220	18	2.0	17	88	5	52	37	2	2	57	1.29
1252536--1252588	10	5.6	10	82	10	51	3	20	0	75	0.96
1252533--1252588	21	2.7	21	86	2	69	3	19	0	76	0.93
1253298--1253338	11	3.6	12	87	9	59	9	9	0	80	0.91
1253298--1253343	11	4.1	11	82	2	56	8	8	0	82	0.84
1270756--1270808	25	2.2	24	86	3	70	16	33	13	35	1.88
1276482--1276705	55	4.1	55	82	1	227	38	16	14	30	1.88
1276435--1276705	110	2.5	110	77	2	276	36	16	15	30	1.90
1280011--1280053	20	2.2	20	86	0	59	30	23	2	44	1.66
1280072--1280146	24	3.2	24	64	27	61	30	17	6	45	1.74
1280037--1280302	45	5.9	45	93	0	417	31	19	7	40	1.80
1286636--1286663	13	2.2	13	100	0	56	35	28	7	28	1.84
1288355--1288619	45	5.9	45	90	0	397	31	20	6	41	1.79
1292472--1292498	14	1.9	14	100	0	54	22	37	0	40	1.54
1293668--1293710	20	2.2	20	86	0	59	25	23	4	46	1.71
1293694--1293958	45	5.9	45	93	0	433	30	20	7	40	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1293796--1293919	25	5.4	25	61	31	71	29	21	7	41	1.80
1299793--1300146	55	6.4	55	89	2	505	37	17	16	29	1.91
1312912--1312954	12	3.3	12	78	15	50	67	2	25	4	1.22
1318018--1318198	65	2.7	66	78	7	190	28	17	14	40	1.88
1318249--1318608	134	2.7	132	82	6	383	25	33	18	22	1.96
1319123--1319225	30	3.5	28	77	7	98	18	8	8	64	1.48
1319138--1319253	30	4.0	29	76	8	92	17	12	7	62	1.51
1319138--1319253	59	2.0	58	84	5	153	17	12	7	62	1.51
1319138--1319231	30	3.2	30	77	11	104	17	9	8	64	1.47
1319168--1319317	29	5.0	30	72	8	108	16	14	8	60	1.57

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