genome.fa.s2647.2.7.7.80.10.50.1000.23.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: VEPZ01002647.1 Hibiscus syriacus cultivar Beakdansim tig00005406_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7027529

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   

This is table  23  of  26  ( 3011 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)
6132911--6133248	131	2.5	132	80	4	385	25	17	30	26	1.97
6133271--6133453	65	2.8	64	85	4	251	40	14	19	25	1.89
6133478--6133605	36	3.7	34	78	8	125	39	13	17	29	1.87
6134788--6134881	13	7.5	12	72	22	61	1	14	4	79	0.93
6134785--6134876	31	3.1	29	74	11	87	1	15	4	79	0.95
6134788--6134881	39	2.4	37	77	19	95	1	14	4	79	0.93
6134792--6134882	48	2.0	44	83	16	114	1	14	5	79	0.97
6134777--6134881	17	6.4	17	69	22	64	0	16	4	78	0.98
6137655--6137719	24	2.6	24	73	9	60	49	4	4	41	1.44
6140349--6140381	3	11.0	3	100	0	66	66	0	0	33	0.92
6140925--6141098	65	2.7	65	84	4	226	40	14	19	25	1.89
6144141--6144165	5	5.0	5	100	0	50	60	0	0	40	0.97
6144918--6144977	21	2.8	21	94	2	102	60	11	15	13	1.60
6144918--6144984	21	3.2	21	89	4	73	61	11	13	13	1.58
6152237--6152285	21	2.3	21	89	0	71	16	18	18	46	1.84
6165343--6165379	15	2.4	16	82	17	51	48	0	0	51	1.00
6165663--6165703	6	6.7	6	86	13	57	80	4	0	14	0.87
6166203--6166290	46	1.9	46	86	4	124	34	15	20	29	1.94
6168884--6168984	51	2.0	51	98	0	193	22	4	27	44	1.73
6169837--6170242	54	7.5	54	88	1	562	28	19	19	32	1.96
6176770--6177245	54	8.9	54	87	1	589	30	18	18	32	1.95
6185889--6185934	20	2.3	20	100	0	92	15	10	17	56	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6189162--6189219	29	2.0	29	83	6	73	55	15	0	29	1.41
6189949--6189992	16	2.6	18	78	10	56	50	4	0	45	1.22
6191213--6191262	20	2.5	20	100	0	100	44	20	10	26	1.82
6202306--6202352	21	2.2	21	100	0	94	10	23	21	44	1.83
6206521--6206673	55	2.8	55	90	0	243	42	11	22	23	1.86
6211240--6211348	8	13.2	8	74	18	64	73	0	19	6	1.10
6211265--6211348	7	12.6	7	77	16	63	73	1	16	8	1.13
6211344--6211376	11	2.8	12	90	9	50	78	0	18	3	0.87
6211240--6211371	58	2.2	59	82	13	153	74	0	19	5	1.06
6212615--6213017	37	10.8	37	77	6	348	35	21	18	24	1.95
6213378--6213983	54	11.2	54	89	1	808	31	20	26	22	1.98
6216079--6216208	64	2.0	65	98	1	253	35	4	9	50	1.55
6221837--6221878	20	2.2	19	86	4	57	28	11	14	45	1.80
6224086--6224153	28	2.4	28	90	0	109	33	8	7	50	1.61
6228192--6228232	22	1.9	21	90	5	64	19	2	36	41	1.65
6240097--6240159	11	5.9	11	69	14	51	57	3	1	38	1.24
6247834--6247906	14	5.4	14	73	17	64	26	2	27	43	1.68
6248250--6248295	16	2.8	16	80	12	58	28	4	6	60	1.40
6248836--6249192	81	4.4	81	88	2	491	29	22	10	36	1.88
6249512--6249694	96	1.9	95	85	4	253	24	20	11	43	1.85
6254636--6254980	45	7.7	44	88	1	447	22	20	11	45	1.83
6254636--6254980	90	3.8	90	88	2	503	22	20	11	45	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6254636--6254980	136	2.5	135	88	2	496	22	20	11	45	1.83
6254883--6254957	19	3.6	19	69	22	60	22	21	13	42	1.87
6256082--6256123	22	1.9	22	85	0	57	28	19	9	42	1.82
6256054--6256421	81	4.5	81	85	3	479	28	21	11	38	1.88
6256836--6256884	19	2.6	19	86	0	62	20	28	12	38	1.89
6270302--6270362	32	2.0	31	84	15	83	59	8	4	27	1.47
6273409--6273491	35	2.4	35	85	0	112	32	13	19	34	1.90
6274640--6274699	28	2.1	28	87	0	84	36	0	21	41	1.54
6293936--6294818	447	2.0	447	94	0	1568	31	25	12	30	1.92
6295878--6296319	42	10.8	41	75	8	213	30	18	17	34	1.93
6296136--6296319	42	4.4	42	87	0	235	27	16	18	38	1.92
6299828--6300122	43	7.0	43	90	1	393	40	23	17	19	1.91
6303754--6304047	43	7.0	43	90	3	413	40	21	18	19	1.91
6307409--6307453	23	1.9	24	90	4	74	71	4	4	20	1.21
6314040--6314838	82	9.8	82	89	0	1177	35	13	23	27	1.92
6314804--6314900	49	2.0	49	83	0	122	35	13	23	27	1.92
6314889--6314978	46	2.0	46	86	4	128	47	11	20	21	1.80
6315642--6315679	17	2.4	16	87	12	53	71	5	2	21	1.19
6318385--6318422	19	2.0	19	90	10	60	52	10	5	31	1.58
6319457--6319513	30	2.0	29	89	6	89	40	5	22	31	1.76
6335122--6335161	20	2.1	19	90	4	62	30	17	17	35	1.93
6340715--6340964	125	2.0	125	100	0	500	34	9	12	44	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6347209--6347825	310	2.0	307	99	0	1207	34	4	21	38	1.75
6350668--6350703	17	2.1	17	89	0	54	38	5	16	38	1.72
6350678--6350721	18	2.5	19	85	10	58	45	9	9	36	1.68
6350678--6350727	17	2.9	17	77	19	50	44	8	8	40	1.63
6354488--6354530	15	2.8	14	83	16	50	67	2	9	20	1.30
6357639--6357668	15	2.0	15	93	0	51	30	33	10	26	1.89
6364610--6364720	32	3.4	32	86	1	141	28	0	16	54	1.42
6364610--6364749	32	4.3	32	81	5	120	27	0	17	53	1.49
6366664--6366719	28	2.0	29	92	3	96	28	14	3	53	1.57
6376524--6376571	19	2.5	20	86	3	62	47	6	14	31	1.69
6377929--6377980	20	2.6	20	90	0	86	32	17	17	32	1.93
6380952--6380999	19	2.5	20	86	3	62	47	6	14	31	1.69
6382182--6382233	20	2.6	20	90	0	86	32	17	17	32	1.93
6390759--6390825	3	22.7	3	74	8	57	34	5	0	59	1.22
6393007--6393048	16	2.5	17	88	11	61	28	4	0	66	1.12
6403929--6404030	6	16.8	6	83	9	100	78	0	17	3	0.90
6403929--6404030	36	2.8	36	80	12	118	78	0	17	3	0.90
6405273--6405651	132	2.8	131	81	7	408	34	19	15	30	1.93
6417384--6417423	21	1.9	21	85	10	55	22	15	17	45	1.85
6421350--6421389	21	1.9	21	94	0	71	17	20	30	32	1.95
6425972--6426002	3	10.3	3	100	0	62	0	35	0	64	0.94
6427313--6427360	14	3.4	14	94	2	78	37	0	22	39	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6428602--6428636	11	3.1	11	87	4	52	77	0	14	8	0.99
6435071--6435151	40	2.0	40	100	0	162	34	18	22	24	1.96
6435111--6435251	69	2.0	69	97	0	264	34	15	26	23	1.94
6439463--6439492	15	2.0	15	100	0	60	46	13	20	20	1.83
6440320--6440358	18	2.2	18	86	13	55	56	5	12	25	1.57
6440690--6440736	19	2.4	19	79	13	51	31	0	2	65	1.04
6444831--6444882	22	2.4	23	81	12	65	28	11	34	25	1.91
6445380--6445537	26	6.5	26	73	19	162	44	11	19	24	1.83
6445406--6445557	46	3.3	46	93	3	261	43	11	21	24	1.85
6445478--6445761	66	4.2	66	74	15	283	42	10	23	23	1.84
6445360--6445787	92	4.6	91	76	14	309	43	10	21	24	1.84
6445544--6445820	46	6.0	46	91	0	446	42	10	22	24	1.84
6445354--6445669	112	2.8	112	90	2	470	44	10	21	24	1.83
6445354--6445741	158	2.4	161	86	6	543	44	10	21	24	1.83
6445498--6445809	138	2.3	136	84	8	393	42	10	23	23	1.84
6445552--6445857	138	2.2	138	87	2	420	44	9	21	23	1.81
6450358--6450386	2	14.5	2	100	0	58	51	0	0	48	1.00
6468300--6468326	4	6.8	4	100	0	54	77	0	0	22	0.76
6472086--6472193	45	2.5	42	89	4	162	42	12	43	0	1.49
6472086--6472190	21	4.9	21	89	6	156	41	13	43	0	1.50
6472524--6472640	39	3.0	39	100	0	234	33	5	20	41	1.74
6476281--6476333	25	2.1	26	89	3	81	47	13	7	32	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6478069--6478105	3	12.3	3	100	0	74	32	0	0	67	0.91
6498905--6498948	22	2.0	22	95	0	79	45	25	22	6	1.77
6504375--6504420	19	2.3	20	85	14	69	41	2	2	54	1.25
6516925--6516987	23	2.7	23	95	0	108	36	28	17	17	1.93
6519370--6519420	18	2.8	18	90	0	84	29	31	21	17	1.96
6520227--6520308	35	2.3	35	97	0	155	28	21	23	26	1.99
6520297--6520349	21	2.5	20	79	14	54	24	24	18	32	1.97
6523932--6523978	16	2.9	16	93	0	76	42	17	17	23	1.88
6524224--6524287	32	2.0	32	100	0	128	25	12	18	43	1.85
6524586--6524639	22	2.5	20	85	14	65	55	0	0	44	0.99

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26