genome.fa.s7800.2.7.7.80.10.50.1000.5.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: VEPZ01007800.1 Hibiscus syriacus cultivar Beakdansim tig00110114_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4652821

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  5  of  23  ( 2671 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)
966128--966183	19	3.2	19	69	23	59	44	19	21	14	1.86
966128--966207	33	2.4	33	89	0	124	47	20	20	12	1.81
966222--966311	33	2.7	33	87	0	126	16	20	16	46	1.84
966214--966310	19	5.6	19	65	26	72	15	20	17	46	1.84
966295--966338	20	2.2	20	88	4	63	18	25	20	36	1.95
966863--966911	18	2.7	18	84	6	64	16	8	44	30	1.76
968232--968273	20	2.1	20	90	0	66	52	21	16	9	1.72
968552--968595	22	2.0	22	90	0	70	20	15	43	20	1.88
968762--968893	41	3.2	41	80	10	162	24	16	24	34	1.95
968782--968893	20	5.6	20	77	6	100	24	16	25	33	1.96
968822--968917	41	2.3	41	83	3	113	22	18	21	36	1.95
968904--968956	20	2.7	20	93	0	97	20	18	16	43	1.88
968946--968998	21	2.5	22	81	6	74	33	18	26	20	1.96
970031--970101	32	2.2	32	82	0	79	21	29	23	25	1.99
970609--970869	130	2.0	130	98	0	504	32	13	17	37	1.88
970876--970920	23	1.9	24	86	4	65	62	6	0	31	1.21
977783--977825	22	2.0	22	85	0	59	37	11	18	32	1.87
979003--979059	26	2.2	26	90	0	87	43	10	10	35	1.74
993323--993389	31	2.2	31	81	2	82	46	8	5	38	1.60
998440--998504	3	21.7	3	100	0	130	66	0	0	33	0.92
998794--999058	134	2.0	134	92	0	440	22	20	33	23	1.97
999066--999162	28	3.4	28	82	15	101	44	12	16	26	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
999701--999761	31	1.9	31	84	15	81	40	11	14	32	1.82
999996--1000281	120	2.4	121	83	4	337	44	12	12	30	1.79
1000169--1000251	29	3.0	27	83	11	105	46	13	8	31	1.72
1000161--1000253	29	3.2	28	78	17	102	47	13	8	30	1.73
999965--1000282	120	2.6	119	80	6	336	43	12	13	30	1.81
1000479--1000560	36	2.3	36	78	4	94	31	12	19	36	1.89
1000479--1000573	36	2.6	36	78	3	93	35	11	17	34	1.86
1000663--1000780	36	3.3	35	82	9	139	36	12	16	34	1.86
1001126--1001179	4	14.2	4	81	11	69	27	0	20	51	1.47
1001126--1001179	16	3.3	16	87	12	83	27	0	20	51	1.47
1008432--1008508	3	25.7	3	100	0	154	66	0	0	33	0.92
1011628--1011663	14	2.5	14	95	4	63	41	0	0	58	0.98
1011566--1011663	15	6.2	15	78	17	101	44	0	3	52	1.16
1011643--1011794	32	5.4	32	70	28	146	37	0	9	53	1.33
1011643--1011811	54	3.1	54	94	3	304	37	0	9	53	1.34
1011720--1011762	22	2.0	22	95	0	77	37	0	11	51	1.39
1011591--1011811	108	2.1	105	87	10	315	38	0	8	52	1.32
1011688--1012433	134	5.5	135	81	11	829	35	0	11	52	1.39
1011742--1012416	80	8.3	79	78	13	429	35	0	11	52	1.39
1011822--1011928	32	3.7	32	71	23	117	35	0	12	52	1.39
1011852--1011896	22	2.0	22	95	0	81	40	0	11	48	1.39
1011822--1012433	54	11.3	54	76	14	550	35	0	11	52	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1011747--1012159	214	1.9	214	95	0	754	33	0	12	53	1.39
1011961--1012022	18	3.7	18	68	14	51	35	0	8	56	1.29
1012035--1012282	32	7.7	32	70	20	178	35	0	11	52	1.38
1012068--1012112	22	2.1	22	95	4	83	33	0	13	53	1.40
1012122--1012164	22	2.0	22	100	0	86	34	0	13	51	1.42
1012090--1012416	86	3.9	81	81	10	345	36	0	11	52	1.40
1012207--1012259	14	3.5	14	72	18	52	37	0	5	56	1.23
1012315--1012416	32	3.5	31	70	27	98	38	0	8	52	1.33
1011747--1012416	166	4.1	165	76	13	544	35	0	11	52	1.39
1012448--1012507	31	1.9	31	89	0	93	45	10	5	40	1.60
1017405--1017491	35	2.5	34	80	12	97	54	10	8	27	1.62
1019769--1019818	16	3.1	16	82	2	64	64	2	0	34	1.05
1019771--1019848	29	2.5	30	79	12	77	65	3	0	30	1.10
1020517--1020853	145	2.3	143	83	6	414	27	19	5	47	1.72
1021595--1021637	2	21.5	2	100	0	86	51	0	0	48	1.00
1021694--1021755	28	2.3	27	83	10	74	75	0	4	19	0.97
1023637--1024441	84	9.6	84	84	1	921	24	18	23	33	1.96
1024500--1024735	124	1.9	124	88	1	357	27	16	22	33	1.96
1024635--1025099	240	1.9	242	85	3	639	27	18	21	32	1.97
1024880--1025545	287	2.3	287	90	0	1026	24	19	24	32	1.97
1030938--1030968	12	2.5	12	94	5	53	80	0	0	19	0.71
1034184--1034255	16	4.7	15	84	3	72	33	20	6	38	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1034168--1034243	16	4.8	16	78	3	82	34	18	6	40	1.76
1034651--1034830	60	3.0	60	79	6	177	40	5	21	32	1.76
1039880--1039916	20	1.9	19	89	10	58	45	10	24	18	1.81
1040068--1040142	38	2.0	37	82	10	91	49	4	1	45	1.29
1041742--1041773	15	2.1	15	94	0	55	53	15	25	6	1.65
1046009--1046154	60	2.4	60	76	4	143	49	4	12	33	1.61
1052141--1052214	20	3.6	20	72	15	62	27	22	27	22	2.00
1052959--1053176	103	2.1	103	97	0	409	25	13	23	36	1.92
1053193--1053258	23	2.9	23	86	0	78	22	24	27	25	2.00
1053183--1053260	23	3.3	23	78	1	75	24	20	25	29	1.99
1058917--1059131	103	2.1	103	93	0	376	25	13	24	36	1.92
1059150--1059218	23	3.0	23	84	0	84	23	23	24	28	1.99
1061510--1061570	30	2.0	30	93	0	104	31	8	39	21	1.82
1069983--1070012	7	4.3	7	100	0	60	30	13	30	26	1.94
1073825--1073874	15	3.0	17	78	18	52	28	18	0	54	1.44
1074181--1074302	32	3.8	32	76	9	117	33	17	17	31	1.93
1076458--1076500	21	2.0	21	100	0	86	41	9	4	44	1.57
1078386--1078472	32	2.8	32	89	1	122	33	20	16	29	1.94
1087248--1087295	23	2.1	23	88	0	69	35	12	18	33	1.89
1087781--1087843	23	2.7	23	92	0	99	38	20	4	36	1.74
1088212--1088274	23	2.7	23	92	0	99	38	20	4	36	1.74
1087606--1088700	431	2.5	431	97	0	2077	40	13	7	39	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1088643--1088700	23	2.5	23	94	0	98	37	20	5	36	1.75
1088377--1088999	325	1.9	325	99	0	1237	42	13	7	36	1.71
1089384--1089417	16	2.1	16	94	0	59	26	20	5	47	1.73
1090611--1090685	3	25.0	3	77	0	78	24	33	6	36	1.81
1090615--1090702	12	7.3	12	85	0	95	22	32	6	37	1.81
1092178--1092937	199	3.8	199	95	0	1342	29	17	15	37	1.91
1093056--1093104	19	2.6	19	93	0	80	57	10	2	30	1.43
1094675--1094715	21	2.0	21	90	0	64	2	41	0	56	1.13
1094901--1094964	33	1.9	33	90	0	101	23	46	0	29	1.52
1094998--1095041	21	2.1	21	91	0	70	15	31	11	40	1.83
1097065--1097117	24	2.2	24	83	6	63	26	7	13	52	1.66
1097256--1097298	20	2.3	18	85	14	61	20	16	11	51	1.75
1097261--1097307	20	2.4	19	82	10	67	19	17	10	53	1.72
1097228--1097700	181	2.6	182	88	2	666	26	16	13	43	1.85
1099612--1099648	16	2.2	18	85	9	51	27	10	21	40	1.86
1103365--1103397	2	16.5	2	100	0	66	48	0	0	51	1.00
1115507--1115536	15	2.0	15	93	0	51	3	0	20	76	0.92
1122818--1122921	33	3.0	32	80	13	118	29	3	20	46	1.68
1122802--1122908	33	3.0	37	80	13	143	30	4	19	44	1.71
1124002--1124061	27	2.2	27	100	0	120	40	10	35	15	1.80
1124136--1124167	15	2.1	15	94	0	55	53	15	25	6	1.65
1127443--1127535	35	2.6	37	86	3	127	29	4	20	46	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1127443--1127548	35	2.9	35	84	6	117	29	3	20	46	1.68
1131766--1131803	14	2.6	15	84	16	53	2	31	0	65	1.06
1141367--1141421	22	2.5	22	75	0	56	29	9	23	38	1.85
1144776--1144864	29	3.2	29	69	15	96	40	16	1	41	1.56
1148179--1148231	14	3.9	14	78	11	56	50	15	0	33	1.44
1149935--1149972	11	3.5	11	89	3	60	31	7	23	36	1.84
1153878--1153907	15	2.0	15	100	0	60	26	20	20	33	1.97
1159719--1159853	20	6.7	20	79	7	112	33	23	17	25	1.96
1159716--1159853	61	2.3	61	84	0	186	34	23	17	24	1.96
1160021--1160064	22	2.0	22	100	0	88	18	45	18	18	1.86

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23