genome.fa.s9628.2.7.7.80.10.50.1000.5.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: VEPZ01009628.1 Hibiscus syriacus cultivar Beakdansim tig00117021_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2284295

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

This is table  5  of  10  ( 1154 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)
1040810--1040867	20	2.9	21	77	10	68	12	15	27	44	1.82
1042389--1042482	42	2.2	42	84	3	118	20	19	37	23	1.94
1042389--1042458	21	3.3	20	72	4	59	20	20	35	24	1.96
1042404--1042490	21	4.1	21	74	0	84	22	19	36	20	1.95
1042937--1042980	20	2.2	20	95	0	79	50	22	13	13	1.77
1042967--1043014	20	2.4	20	96	0	87	37	27	20	14	1.92
1043131--1043198	20	3.4	20	80	8	75	17	19	26	36	1.94
1045110--1045153	20	2.2	20	95	0	79	50	22	13	13	1.77
1045140--1045187	20	2.4	20	96	0	87	37	27	20	14	1.92
1045304--1045371	20	3.4	20	80	8	75	17	19	26	36	1.94
1047290--1047395	20	5.4	20	84	3	108	46	23	16	14	1.83
1047785--1047842	22	2.6	22	86	0	89	17	17	44	20	1.86
1048002--1048083	41	2.0	41	85	0	110	34	17	24	24	1.96
1052611--1052645	2	18.0	2	88	5	54	48	0	2	48	1.16
1059539--1059587	21	2.3	20	80	10	53	38	4	6	51	1.46
1062808--1062882	21	3.1	24	85	12	93	52	0	5	42	1.24
1063128--1063238	39	2.8	39	76	11	127	53	0	9	36	1.41
1063188--1063221	16	2.2	16	89	5	52	64	0	0	35	0.94
1066409--1066476	17	3.9	17	82	1	73	41	5	11	41	1.66
1066468--1066527	16	3.5	17	84	8	70	41	11	15	31	1.82
1066856--1066890	18	2.0	17	88	5	52	51	2	0	45	1.16
1067280--1067306	2	13.5	2	100	0	54	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1068931--1068956	2	13.0	2	100	0	52	50	50	0	0	1.00
1076728--1076804	37	2.1	38	95	2	138	50	12	7	28	1.68
1104531--1104576	21	2.2	20	84	3	56	65	8	10	15	1.47
1104823--1104887	20	3.3	20	72	10	71	23	20	18	38	1.93
1104864--1104913	26	1.9	26	83	0	64	32	18	14	36	1.90
1105419--1105456	20	1.9	20	94	0	67	13	15	21	50	1.78
1105420--1105463	20	2.2	20	87	0	61	15	15	20	47	1.82
1107117--1107166	21	2.4	21	82	0	64	20	14	32	34	1.92
1107158--1107273	60	1.9	61	80	5	137	22	8	31	37	1.84
1109520--1109555	18	2.0	18	94	0	63	16	2	25	55	1.55
1111985--1112018	12	2.8	12	90	0	50	14	0	29	55	1.40
1112801--1112833	17	1.9	17	88	11	50	48	9	15	27	1.74
1112800--1112986	20	9.5	21	68	22	95	35	12	22	29	1.91
1112819--1112986	40	4.2	41	79	7	150	34	12	23	29	1.91
1112818--1113007	80	2.4	80	80	7	190	33	12	23	30	1.91
1112799--1113012	99	2.2	100	80	9	244	34	11	23	30	1.90
1112839--1112986	60	2.5	60	78	10	160	33	12	24	29	1.92
1112910--1113028	41	3.0	40	80	4	132	28	12	26	31	1.93
1112877--1113012	20	6.8	19	74	14	78	31	11	25	31	1.91
1116428--1116471	17	2.7	16	86	6	61	47	27	13	11	1.77
1116440--1116490	16	3.1	16	85	2	57	52	29	9	7	1.62
1116929--1117063	46	2.9	46	77	8	114	40	25	14	20	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1121769--1121802	11	3.4	10	92	8	52	11	0	8	79	0.94
1122139--1122171	13	2.5	13	95	0	57	42	51	0	6	1.26
1122436--1122479	22	2.0	21	83	12	54	31	0	4	63	1.14
1124345--1124375	3	10.3	3	92	0	53	38	0	29	32	1.57
1124598--1124634	18	2.0	19	89	5	58	13	0	16	70	1.17
1126058--1126107	23	2.1	24	85	7	66	36	24	14	26	1.93
1179947--1179972	2	13.0	2	100	0	52	50	0	0	50	1.00
1180571--1180673	49	2.1	49	94	0	179	33	3	10	51	1.55
1182316--1182430	39	3.0	38	79	11	126	31	14	0	53	1.48
1187236--1187289	22	2.5	21	88	8	74	27	22	22	27	1.99
1188148--1188525	184	2.1	183	90	4	602	46	9	3	40	1.53
1189473--1189529	27	2.1	27	80	6	62	36	1	5	56	1.32
1189916--1189951	18	2.1	18	89	5	56	69	0	0	30	0.89
1191161--1191284	50	2.5	50	85	0	176	15	36	28	20	1.93
1191407--1191443	18	2.1	18	89	0	56	32	24	0	43	1.55
1191558--1191890	111	3.0	111	95	0	594	36	7	10	44	1.68
1193458--1193500	18	2.4	18	88	0	59	34	16	32	16	1.91
1193458--1193500	21	2.0	21	86	0	59	34	16	32	16	1.91
1193708--1193792	35	2.5	33	78	14	91	25	8	10	55	1.62
1199470--1199582	60	1.9	60	84	0	154	30	15	22	30	1.95
1208937--1208981	23	2.0	23	90	0	72	26	20	4	48	1.68
1227838--1227930	21	4.5	21	78	4	100	39	18	24	17	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1227919--1228020	20	5.1	20	77	7	89	33	25	16	24	1.96
1227838--1227930	41	2.3	41	100	0	186	39	18	24	17	1.91
1227916--1227993	41	1.9	41	83	0	102	39	23	15	21	1.91
1228158--1228231	20	3.7	20	80	3	94	40	18	22	17	1.91
1228175--1228245	21	3.4	21	80	3	99	42	18	23	15	1.88
1228158--1228251	41	2.3	41	98	1	179	40	18	24	17	1.91
1228288--1228342	20	2.8	20	88	2	76	25	27	16	30	1.96
1228295--1228348	20	2.8	19	88	5	74	24	29	18	27	1.98
1228537--1228580	22	2.0	22	95	0	79	20	45	15	18	1.85
1228814--1228866	20	2.7	20	84	0	70	16	16	26	39	1.91
1230174--1230218	18	2.5	18	88	0	72	26	44	15	13	1.83
1230688--1230754	20	3.4	20	81	2	73	38	23	22	14	1.92
1230743--1230800	14	3.9	14	79	16	71	48	24	17	10	1.78
1230727--1230805	32	2.4	33	95	2	142	46	22	18	11	1.81
1232129--1232410	142	2.0	140	93	6	482	23	18	23	34	1.96
1232772--1232818	14	2.9	16	74	22	53	46	19	21	12	1.82
1233908--1233961	24	2.2	24	90	0	81	24	16	20	38	1.92
1236436--1236566	19	7.7	19	64	23	85	43	19	22	15	1.87
1236436--1236562	33	3.8	33	84	4	184	43	18	22	15	1.88
1236437--1236569	66	2.0	66	94	0	230	42	18	21	17	1.90
1236562--1236636	19	4.2	19	75	16	70	14	21	21	42	1.88
1236593--1236637	19	2.4	19	96	0	81	13	20	20	46	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1236744--1236780	14	2.6	14	91	0	65	45	24	0	29	1.53
1238044--1238110	21	3.2	21	68	4	55	19	20	35	23	1.95
1238044--1238166	42	2.9	41	78	7	104	21	18	37	21	1.94
1240161--1240224	20	3.2	20	76	8	58	46	17	23	12	1.81
1240256--1240306	19	2.7	19	87	0	75	49	21	17	11	1.79
1240186--1240271	33	2.6	33	96	1	154	38	23	26	11	1.89
1240879--1240931	20	2.7	20	93	0	88	26	20	28	24	1.99
1240940--1240993	20	2.7	20	97	0	99	25	18	24	31	1.97
1240880--1240996	61	1.9	61	85	0	162	23	17	24	33	1.97
1240875--1241014	61	2.3	61	80	6	160	23	18	24	33	1.97
1252931--1252964	17	1.9	18	88	5	52	32	0	2	64	1.08
1261861--1261957	41	2.4	42	86	6	137	25	18	14	41	1.89
1267670--1267712	2	21.5	2	100	0	86	51	0	0	48	1.00
1273428--1273462	15	2.3	15	90	0	52	48	5	8	37	1.58
1276458--1276523	6	11.0	6	98	0	105	28	0	37	33	1.58
1276459--1276611	7	23.5	6	94	4	126	20	0	40	39	1.52
1276502--1276613	7	16.4	7	97	0	194	16	0	41	41	1.48
1282580--1282657	33	2.4	33	85	8	97	38	0	1	60	1.05
1289225--1289250	13	2.0	13	100	0	52	84	7	7	0	0.77
1289552--1289602	24	2.2	23	82	10	59	37	1	1	58	1.20
1292403--1292432	14	2.1	14	93	0	51	53	0	13	33	1.40
1295627--1295656	10	2.9	10	95	5	51	50	0	23	26	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1296196--1296259	27	2.4	27	86	0	83	56	0	3	40	1.15
1296217--1296308	27	3.5	27	80	18	97	54	0	3	42	1.16
1296213--1296308	26	3.7	26	77	18	92	55	0	3	41	1.16
1296267--1296316	26	1.9	27	84	8	68	56	0	4	40	1.18
1313971--1314039	37	1.9	37	94	5	124	43	2	21	31	1.67
1316591--1316635	15	2.9	16	80	12	67	44	2	33	20	1.63
1316610--1316710	12	8.7	12	74	10	84	40	11	33	13	1.82
1316592--1316650	21	3.3	18	81	15	61	42	3	33	20	1.69
1316625--1316716	9	10.2	9	79	0	76	40	13	33	13	1.82
1316613--1316677	21	3.1	21	90	0	103	41	7	35	15	1.76

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