genome.fa.s8092.2.7.7.80.10.50.1000.6.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: VEPZ01008092.1 Hibiscus syriacus cultivar Beakdansim tig00110607_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2324158

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  6  of  12  ( 1399 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)
889053--889188	69	2.0	69	98	0	263	25	5	15	52	1.65
889566--889725	78	2.0	79	92	1	268	31	9	5	53	1.56
889910--889995	43	2.0	43	100	0	172	27	6	11	53	1.63
899863--899907	22	2.0	22	83	8	56	68	0	26	4	1.08
901135--901564	111	3.9	111	91	1	666	31	24	16	26	1.96
901688--901727	3	12.7	3	89	10	62	32	0	2	65	1.06
903035--903146	35	3.2	35	64	12	95	26	4	11	57	1.53
903017--903150	69	1.9	69	98	0	259	26	4	14	54	1.59
903527--903686	78	2.0	79	91	1	259	31	8	6	53	1.57
907099--907137	14	2.6	15	88	8	53	61	5	2	30	1.31
912187--912227	21	2.0	21	85	0	55	39	14	2	43	1.59
916776--916852	18	4.2	18	93	3	127	45	15	6	32	1.72
920510--920641	44	3.0	44	96	0	246	18	32	11	37	1.87
920516--920586	23	3.2	23	62	22	60	16	35	11	36	1.85
920540--920607	21	3.1	21	63	29	52	22	29	10	38	1.87
920807--920844	19	2.0	19	100	0	76	31	21	21	26	1.98
923981--924067	44	2.0	44	88	4	131	24	11	20	43	1.85
925206--925324	59	2.0	59	100	0	238	31	21	11	35	1.90
925770--925812	18	2.4	19	88	7	63	18	4	4	72	1.20
936879--936933	24	2.2	25	74	3	58	54	9	1	34	1.43
937752--937793	14	2.9	14	80	16	50	76	0	4	19	0.96
941954--942161	45	4.6	45	92	0	317	22	19	11	47	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
942633--942683	19	2.5	21	87	9	70	25	19	17	37	1.94
944507--944541	14	2.5	14	90	0	61	48	0	0	51	1.00
955298--955346	23	2.1	23	96	0	89	32	16	24	26	1.96
956508--956983	182	2.6	182	85	3	606	44	13	15	26	1.84
956868--957105	122	1.9	123	89	2	372	47	13	13	26	1.80
956686--957288	305	2.0	305	95	0	1089	45	13	14	27	1.81
956991--957478	183	2.7	183	89	0	719	46	13	14	26	1.81
957319--957821	181	3.0	163	79	11	571	44	12	14	27	1.82
957480--957955	181	2.6	181	90	3	771	44	12	15	27	1.82
959581--959612	3	10.7	3	93	0	55	37	0	31	31	1.58
959569--959608	12	3.3	12	89	6	55	40	2	30	27	1.70
961000--961048	21	2.3	21	85	0	62	46	16	14	22	1.82
961019--961876	199	4.3	199	86	3	1154	43	15	13	28	1.84
961019--961876	398	2.2	400	90	1	1321	43	15	13	28	1.84
962500--962535	18	2.0	18	100	0	72	11	27	16	44	1.82
963474--963983	198	2.5	200	85	5	654	39	13	16	31	1.87
963990--964070	23	3.5	23	89	0	108	38	16	4	40	1.70
964463--964593	29	4.5	29	98	0	244	21	29	3	45	1.67
966822--966851	2	15.0	2	100	0	60	50	0	0	50	1.00
966918--966954	2	19.5	2	83	10	51	48	0	0	51	1.00
969740--969839	49	2.0	49	100	0	200	24	18	22	36	1.95
970470--970635	82	2.0	82	100	0	332	22	31	15	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
982737--982779	13	3.4	13	93	3	70	55	4	25	13	1.58
992572--992603	16	2.0	16	100	0	64	25	31	25	18	1.98
994161--994221	23	2.7	23	84	0	77	21	24	26	27	1.99
995847--995896	24	2.1	24	85	7	66	60	12	2	26	1.43
1005781--1005830	24	2.1	24	85	7	66	60	12	2	26	1.43
1011003--1011070	23	3.0	23	84	0	82	22	26	25	26	2.00
1015567--1015625	23	2.6	23	83	0	73	27	33	25	13	1.93
1015912--1015937	2	13.0	2	100	0	52	50	0	0	50	1.00
1017697--1017747	24	2.2	22	80	10	57	15	9	9	64	1.48
1020275--1020330	20	2.7	20	88	8	76	17	17	8	55	1.67
1020318--1020344	14	1.9	14	100	0	54	14	22	18	44	1.86
1021396--1021435	2	20.0	2	94	0	71	47	0	2	50	1.14
1021761--1022093	76	4.5	75	76	8	277	31	17	11	39	1.85
1021785--1022065	146	1.9	146	82	7	347	33	16	10	40	1.82
1022108--1022207	39	2.6	37	81	12	105	27	14	14	45	1.82
1022139--1022233	39	2.4	39	89	1	136	30	10	14	44	1.79
1022264--1022510	52	4.6	51	77	10	203	30	10	19	39	1.85
1022547--1022696	42	3.6	42	87	2	187	24	20	22	32	1.98
1022957--1023163	111	1.8	115	84	12	286	31	10	20	36	1.87
1024356--1024737	105	3.6	105	91	1	611	38	17	21	23	1.93
1036932--1037007	38	2.0	38	100	0	152	26	31	13	28	1.93
1040187--1040511	160	2.0	160	99	0	641	31	18	12	37	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1046808--1046862	22	2.5	22	96	0	101	30	25	20	23	1.98
1048566--1048623	21	2.8	21	94	0	98	31	31	18	18	1.96
1048629--1048710	23	3.7	22	69	21	55	42	14	12	30	1.82
1048805--1048852	21	2.2	21	81	7	51	39	18	4	37	1.70
1051189--1051220	2	16.0	2	100	0	64	50	0	0	50	1.00
1052473--1052573	3	33.7	3	100	0	202	66	0	0	33	0.92
1057549--1057594	23	2.0	23	91	0	74	28	26	23	21	1.99
1057572--1057875	149	2.0	149	98	0	590	35	20	15	28	1.93
1058331--1058489	63	2.5	63	85	4	196	25	21	19	33	1.97
1064617--1064918	149	2.0	149	97	0	568	36	20	14	28	1.92
1065374--1065532	63	2.5	63	84	6	189	26	21	19	32	1.97
1079776--1079836	20	2.9	21	87	7	79	18	26	34	21	1.96
1082740--1082784	22	2.0	22	100	0	90	22	33	13	31	1.92
1092262--1092315	27	2.0	27	96	0	99	12	29	9	48	1.73
1094107--1094153	25	1.9	24	82	4	58	44	4	23	27	1.72
1096788--1096852	18	3.7	18	89	2	96	27	30	6	35	1.81
1097204--1097268	31	2.1	30	88	2	94	41	9	21	27	1.83
1099130--1099272	71	2.0	72	98	1	279	22	26	26	24	2.00
1108596--1108741	3	49.3	3	97	2	278	66	0	33	0	0.92
1112038--1112081	5	8.8	5	100	0	88	0	40	18	40	1.50
1112247--1112271	12	2.1	12	100	0	50	32	0	0	68	0.90
1115226--1115439	73	2.9	73	94	0	356	21	16	15	45	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1119181--1119223	19	2.4	18	88	7	61	39	0	18	41	1.51
1120533--1120589	27	2.1	28	86	3	80	54	14	1	29	1.50
1125815--1125872	24	2.4	24	80	5	64	24	20	39	15	1.91
1130959--1131017	30	2.2	25	74	25	66	35	28	11	23	1.91
1142808--1143209	197	2.0	199	98	1	774	39	18	8	33	1.81
1145516--1145552	20	1.9	19	89	10	58	45	10	24	18	1.81
1146325--1146521	97	2.0	97	97	1	369	38	17	2	42	1.61
1148045--1148114	18	3.7	18	76	17	63	51	0	1	47	1.09
1148042--1148099	18	3.3	17	79	20	66	53	0	0	46	1.00
1148057--1148094	15	2.5	15	80	12	51	52	0	0	47	1.00
1148076--1148137	23	2.7	23	80	7	81	51	0	4	43	1.23
1148196--1148247	23	2.5	21	84	15	72	59	0	0	40	0.97
1148200--1148258	23	2.5	23	76	21	59	55	0	0	44	0.99
1148197--1148251	22	2.6	22	73	21	55	60	0	0	40	0.97
1148214--1148253	20	2.0	20	85	9	55	62	0	0	37	0.95
1152541--1152643	36	2.9	36	92	0	170	41	15	16	26	1.88
1160495--1160597	36	2.9	36	97	0	188	41	16	17	24	1.89
1161372--1161456	27	3.2	27	64	12	77	42	23	5	28	1.77
1161377--1161480	52	2.0	52	100	0	208	44	23	5	26	1.76
1161383--1161463	25	3.2	25	64	19	67	41	23	4	29	1.75
1161394--1161476	27	3.1	27	64	19	75	44	25	3	26	1.70
1163271--1163336	30	2.2	30	84	13	82	10	27	24	37	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1163291--1163337	20	2.3	20	81	0	58	10	25	23	40	1.87
1169625--1169737	50	2.3	50	82	3	138	41	18	7	32	1.78
1194601--1194646	22	2.0	23	87	4	67	45	15	10	28	1.79
1198073--1198302	64	3.6	63	80	5	210	26	17	26	28	1.98
1198201--1198251	19	2.7	19	85	8	70	25	15	35	23	1.94
1198095--1198302	65	3.2	64	81	11	210	27	17	25	29	1.97
1201468--1201800	166	2.0	167	99	0	659	35	22	15	27	1.94
1204630--1204673	23	2.0	22	86	4	61	27	20	6	45	1.76
1204826--1204865	21	1.9	21	85	10	55	35	10	2	52	1.48
1206783--1207012	64	3.6	63	80	5	210	26	17	26	28	1.98

Tables:   1   2   3   4   5   6   7   8   9   10   11   12