genome.fa.s8242.2.7.7.80.10.50.1000.38.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: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  16962412

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   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   

This is table  38  of  73  ( 8740 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)
9179766--9179803	15	2.5	15	100	0	76	5	39	36	18	1.73
9181247--9182611	85	16.0	85	85	2	1689	25	17	21	35	1.95
9181247--9182611	171	8.0	170	86	1	1725	25	17	21	35	1.95
9181247--9182611	256	5.3	255	86	1	1759	25	17	21	35	1.95
9187311--9187410	48	2.0	49	96	3	184	49	8	14	29	1.71
9188046--9188106	17	3.5	17	73	13	52	75	8	1	14	1.11
9188082--9188123	9	4.7	9	82	11	50	80	2	4	11	0.95
9188253--9188288	16	2.2	17	90	5	56	75	0	5	19	1.00
9188368--9188406	3	13.0	3	100	0	78	66	0	0	33	0.92
9188466--9188516	18	2.6	19	81	9	59	74	0	7	17	1.05
9188525--9188559	2	17.5	2	100	0	70	51	0	0	48	1.00
9189358--9189432	38	2.0	37	94	2	132	28	22	16	33	1.95
9192157--9192310	60	2.5	60	81	5	166	32	17	5	44	1.71
9193608--9193957	173	2.0	173	99	0	693	26	23	16	34	1.95
9202317--9202343	14	1.9	14	100	0	54	44	22	7	25	1.79
9207466--9207504	13	3.0	13	84	0	60	33	20	20	25	1.97
9214585--9214652	35	1.9	35	100	0	136	29	17	19	33	1.95
9217837--9217894	21	2.8	21	81	5	64	24	15	25	34	1.95
9217859--9217914	21	2.5	22	78	21	64	25	21	23	30	1.99
9224644--9224713	21	3.2	21	80	8	61	24	18	25	31	1.98
9224672--9224737	23	2.9	23	84	4	80	30	19	21	28	1.98
9226419--9226477	19	2.9	20	78	14	59	52	16	0	30	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9227886--9227937	22	2.5	20	82	11	61	17	9	0	73	1.09
9236587--9236626	21	1.9	21	84	0	53	22	15	27	35	1.94
9236498--9236837	170	2.0	170	98	1	664	23	14	28	33	1.93
9236757--9236796	21	1.9	21	84	0	53	22	15	27	35	1.94
9237021--9237063	17	2.4	18	84	3	52	46	2	16	34	1.60
9268495--9268667	90	1.9	89	92	1	292	43	6	10	38	1.67
9274976--9275024	18	2.7	18	93	0	80	22	18	16	42	1.88
9275297--9275469	90	1.9	89	94	1	301	44	6	10	37	1.67
9279614--9279672	31	1.9	31	96	0	109	38	1	13	45	1.54
9279610--9279682	31	2.4	30	77	6	92	41	1	10	46	1.48
9282051--9282138	29	3.0	29	98	0	167	46	13	13	26	1.80
9286641--9286699	29	2.0	29	100	0	118	49	13	13	23	1.78
9293474--9293516	20	2.2	20	100	0	86	39	18	30	11	1.86
9306534--9306628	34	2.7	35	88	6	129	31	22	8	37	1.84
9306570--9306628	18	3.4	17	68	17	50	32	20	10	37	1.86
9307962--9308152	82	2.3	84	80	8	212	28	18	16	35	1.93
9307961--9308148	41	4.5	41	81	4	182	28	18	16	36	1.93
9311156--9311284	41	3.1	41	82	2	152	32	22	15	29	1.95
9312305--9312329	6	4.2	6	100	0	50	16	36	16	32	1.90
9313388--9313600	39	5.8	39	71	21	149	43	4	9	42	1.57
9313383--9313441	28	2.1	27	81	9	66	45	5	8	40	1.56
9313427--9313492	26	2.4	28	87	10	109	43	3	9	43	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9313363--9313528	65	2.5	65	84	12	228	45	2	9	43	1.48
9313427--9313504	26	2.9	26	86	3	93	43	2	10	43	1.52
9313459--9313561	40	2.6	41	81	15	128	44	3	9	41	1.55
9313454--9313638	38	4.8	37	76	17	137	41	4	9	45	1.56
9313624--9313695	32	2.3	29	84	15	83	31	0	1	66	1.00
9313636--9313684	12	4.0	12	79	10	55	32	0	0	67	0.91
9313635--9313684	25	2.0	25	88	7	75	32	0	0	68	0.90
9313641--9313693	25	2.1	26	82	3	63	35	0	0	64	0.94
9319195--9319384	99	1.9	100	85	1	265	35	17	15	31	1.91
9321353--9321593	39	6.2	37	84	7	252	44	5	8	41	1.57
9321440--9321464	11	2.3	11	100	0	50	40	8	8	44	1.63
9321451--9321502	26	1.9	28	88	7	81	46	3	7	42	1.51
9321347--9321618	37	7.0	38	81	12	213	44	5	8	41	1.56
9321489--9321632	38	3.8	36	74	16	112	42	5	6	45	1.54
9321644--9321676	12	2.7	12	95	4	57	36	0	0	63	0.95
9322897--9322976	41	2.0	41	82	9	101	25	12	1	61	1.39
9322942--9323051	50	2.2	49	80	15	118	24	9	0	65	1.27
9324883--9324999	59	2.0	59	86	3	164	33	22	17	26	1.96
9334833--9334877	16	2.8	16	77	9	56	46	31	0	22	1.52
9342841--9342995	65	2.4	64	86	3	195	30	18	20	30	1.96
9343405--9343446	22	2.0	22	86	9	61	50	2	14	33	1.56
9343473--9343956	263	1.8	263	81	5	602	39	10	16	33	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9344538--9344564	3	9.0	3	100	0	54	33	0	0	66	0.92
9346057--9346121	29	2.2	29	97	0	121	21	20	7	50	1.72
9346057--9346136	29	2.8	28	88	7	90	21	22	7	48	1.74
9347291--9347341	19	2.6	20	79	14	61	54	13	17	13	1.70
9347303--9347341	19	2.1	19	90	9	62	58	10	15	15	1.62
9348486--9348562	21	3.4	21	72	19	64	14	10	15	59	1.60
9348474--9348578	48	2.2	48	75	1	113	20	12	18	49	1.79
9350650--9350690	13	3.2	14	80	19	54	29	7	7	56	1.54
9361406--9361450	18	2.5	18	92	0	72	40	8	11	40	1.72
9363143--9363197	23	2.5	22	82	5	76	29	20	16	34	1.94
9366355--9366388	14	2.4	14	90	9	52	44	0	0	55	0.99
9368454--9368516	23	2.7	23	87	0	81	22	23	26	26	2.00
9371251--9371358	54	2.0	54	100	0	216	29	24	31	14	1.95
9387262--9387317	23	2.4	23	93	0	94	16	21	28	33	1.95
9388741--9388786	23	2.0	24	82	4	58	36	4	8	50	1.53
9395797--9395840	20	2.2	20	91	0	70	22	9	25	43	1.82
9396043--9396268	87	2.6	86	89	0	326	36	17	23	22	1.95
9396539--9396572	14	2.4	14	90	9	52	44	0	0	55	0.99
9400118--9400179	18	3.4	18	84	0	79	17	14	45	22	1.85
9414636--9414684	25	2.0	25	83	0	62	14	20	16	48	1.80
9416837--9416884	19	2.5	19	93	0	78	68	2	6	22	1.23
9422121--9422170	19	2.6	19	90	0	82	28	14	28	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9422279--9422328	20	2.5	20	87	3	66	32	18	28	22	1.97
9422784--9422831	3	16.7	3	83	16	66	33	0	0	66	0.92
9422784--9422831	16	3.1	16	83	16	66	33	0	0	66	0.92
9422781--9422831	24	2.1	24	89	7	77	33	0	0	66	0.92
9424232--9424272	20	2.0	20	86	9	57	29	4	2	63	1.28
9426708--9426736	12	2.3	13	94	5	51	27	13	6	51	1.66
9430877--9431104	114	2.0	114	98	0	438	31	14	21	32	1.93
9433309--9433415	54	2.0	54	83	5	137	32	14	23	28	1.95
9434252--9434872	112	5.5	112	93	1	1005	36	15	19	27	1.93
9435194--9435310	3	39.7	3	91	6	195	33	0	0	65	0.98
9436775--9436840	3	22.3	3	77	14	66	28	3	1	66	1.15
9436841--9436877	18	2.1	18	90	10	58	59	0	0	40	0.97
9446869--9446899	15	2.1	14	94	5	53	32	0	3	64	1.09
9446966--9447031	22	3.3	19	69	19	53	51	0	1	46	1.10
9447065--9447095	15	2.1	15	100	0	62	58	0	0	41	0.98
9447982--9448054	31	2.3	32	83	4	103	50	0	12	36	1.40
9448959--9449093	45	3.2	40	82	11	153	46	8	19	25	1.77
9449777--9449864	26	3.2	26	63	12	68	31	15	9	43	1.79
9449773--9449888	56	2.1	56	100	0	232	33	18	10	37	1.84
9451159--9451497	37	9.1	37	76	14	263	44	8	2	45	1.46
9451159--9451491	76	4.5	73	75	16	267	44	8	2	45	1.46
9451319--9451406	35	2.6	33	89	7	124	45	9	1	44	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9457239--9457296	2	29.0	2	85	0	80	50	6	0	43	1.29
9461735--9461813	38	2.1	39	90	2	124	12	8	36	41	1.74
9463729--9463833	37	2.8	37	85	0	138	40	15	13	30	1.85
9464222--9464352	27	4.7	27	68	22	74	26	3	3	67	1.20
9464219--9464273	18	3.1	17	84	12	58	29	0	1	69	0.99
9464237--9464278	9	4.7	9	80	11	50	26	0	0	73	0.83
9464219--9464278	24	2.4	25	83	8	77	28	0	1	70	0.97
9464419--9464500	26	3.2	24	73	14	67	26	4	3	64	1.30
9464677--9464728	19	2.8	19	75	13	54	23	7	1	67	1.27
9468718--9468792	16	4.6	16	76	12	64	76	6	16	1	1.07

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   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73