genome.fa.s9639.2.7.7.80.10.50.1000.57.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: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  15077257

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   

This is table  57  of  62  ( 7398 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)
13730334--13730394	30	2.0	30	96	0	113	34	18	22	24	1.96
13730423--13730722	100	2.9	102	83	7	347	32	25	19	22	1.98
13731265--13731369	37	2.8	37	80	0	120	43	13	13	29	1.82
13731729--13731768	18	2.3	18	83	8	57	25	5	2	67	1.23
13731768--13731854	42	2.0	44	82	8	108	33	4	1	60	1.24
13732027--13732077	8	6.1	8	76	14	50	23	3	0	72	1.01
13732271--13732309	2	20.0	2	89	5	62	46	0	0	53	1.00
13734788--13734909	50	2.4	49	82	9	131	26	29	28	15	1.96
13734927--13734996	29	2.4	28	79	6	86	40	11	18	30	1.86
13741009--13741078	31	2.3	31	82	5	79	60	1	18	20	1.45
13741239--13741363	32	3.8	31	83	9	135	52	4	16	26	1.61
13753780--13753938	55	2.9	54	88	3	192	36	18	15	29	1.92
13753901--13753970	32	2.1	34	84	10	92	32	18	12	35	1.89
13753850--13754025	87	2.0	87	89	4	266	34	17	14	32	1.91
13753938--13754137	54	3.7	54	91	2	321	38	18	10	32	1.85
13754522--13754563	20	2.1	20	82	8	50	26	11	11	50	1.74
13758212--13758270	20	2.8	20	82	10	64	69	3	10	16	1.30
13759708--13759966	54	4.8	54	87	0	286	30	15	18	34	1.93
13759754--13759967	54	4.0	54	91	0	356	30	14	19	35	1.92
13760287--13760326	20	2.0	20	85	0	53	27	25	12	35	1.92
13761706--13761829	32	3.8	33	87	6	155	53	3	14	29	1.57
13761706--13761829	66	1.9	66	85	6	171	53	3	14	29	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13765288--13765363	21	3.6	21	76	3	80	35	14	23	26	1.93
13766189--13766269	28	2.9	28	90	0	126	19	18	24	37	1.94
13767146--13767202	21	2.7	21	88	2	87	42	24	7	26	1.80
13770087--13770148	15	4.0	16	76	15	51	62	3	11	22	1.42
13773649--13773754	18	5.9	18	87	0	158	18	21	32	27	1.97
13777608--13777657	21	2.3	22	82	6	66	58	4	2	36	1.29
13777808--13777844	19	2.0	19	89	5	58	27	5	2	64	1.28
13777829--13777888	28	2.2	26	82	5	66	30	3	5	61	1.33
13780034--13780086	25	2.1	25	92	0	88	22	0	26	50	1.49
13787154--13787204	15	3.3	15	94	2	84	52	5	0	41	1.25
13792937--13792977	20	2.0	20	90	0	64	31	12	17	39	1.86
13793795--13793875	32	2.5	32	79	0	81	32	23	25	18	1.97
13793814--13793890	32	2.4	32	80	0	82	27	23	24	24	2.00
13793923--13794119	97	2.0	97	100	0	394	41	18	9	30	1.81
13794999--13795048	22	2.3	22	100	0	100	32	14	16	38	1.88
13794998--13795055	22	2.4	25	83	13	77	31	15	13	39	1.86
13795068--13795128	27	2.2	28	85	2	79	21	4	21	52	1.65
13796570--13796661	28	3.3	28	98	0	175	20	0	46	32	1.51
13801944--13801973	13	2.3	13	100	0	60	33	13	6	46	1.69
13802790--13803077	30	9.6	30	84	3	303	35	5	35	24	1.78
13802778--13803083	60	5.1	60	78	6	334	35	4	35	23	1.77
13802825--13802904	15	5.3	15	69	16	58	40	5	36	18	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13802779--13803082	120	2.5	121	87	4	456	35	4	35	24	1.77
13802806--13803077	90	3.0	90	83	4	343	34	5	35	24	1.78
13802945--13803077	15	8.9	15	66	9	65	36	4	34	24	1.76
13805853--13805895	22	2.0	22	100	0	86	30	18	13	37	1.90
13806256--13806286	15	2.1	15	100	0	62	48	25	0	25	1.52
13807060--13807101	17	2.4	19	80	15	54	42	0	2	54	1.13
13807041--13807089	25	2.0	25	84	7	66	40	2	0	57	1.10
13807877--13807970	39	2.4	39	81	10	104	43	1	14	40	1.53
13808021--13808052	2	16.0	2	93	0	55	46	0	0	53	1.00
13811115--13811142	10	2.8	10	100	0	56	39	0	53	7	1.28
13814047--13814085	2	19.5	2	94	0	69	46	2	0	51	1.14
13819453--13819564	6	18.7	6	97	0	197	50	13	16	18	1.77
13819783--13820122	131	2.6	130	81	6	414	23	15	34	26	1.95
13820127--13820318	66	2.9	66	87	1	271	38	14	23	23	1.92
13820323--13820363	21	1.9	22	90	5	66	34	9	19	36	1.85
13820353--13820453	45	2.3	44	84	5	141	37	13	24	23	1.92
13820589--13820787	72	2.7	71	79	4	220	37	9	17	36	1.82
13825979--13826065	18	4.9	18	81	5	115	28	28	21	20	1.98
13825979--13826065	34	2.5	36	85	9	126	28	28	21	20	1.98
13826324--13826361	2	19.0	2	100	0	76	50	0	0	50	1.00
13826754--13826800	16	2.6	19	87	12	64	25	25	19	29	1.98
13827680--13827729	23	2.2	23	88	0	73	32	28	16	24	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13829533--13829567	18	1.9	18	88	0	52	28	31	20	20	1.97
13836059--13836111	18	2.9	18	91	0	79	24	32	22	20	1.98
13836370--13836415	2	23.0	2	100	0	92	50	0	0	50	1.00
13836810--13836881	37	2.0	37	86	8	103	20	26	20	31	1.98
13838825--13838864	5	7.8	5	83	5	53	80	5	0	15	0.88
13840496--13840599	3	34.7	3	96	0	163	61	0	4	33	1.17
13841324--13841378	10	5.6	10	78	4	58	65	16	5	12	1.43
13841335--13841378	19	2.2	20	88	8	72	68	15	2	13	1.31
13841576--13841636	10	5.0	13	72	27	62	63	16	9	9	1.50
13841567--13841636	24	2.9	24	93	4	115	62	15	10	11	1.53
13841573--13841640	14	5.4	14	66	30	55	63	17	8	10	1.51
13844326--13844394	30	2.2	30	80	15	77	34	5	17	42	1.73
13844336--13844394	30	2.0	30	90	6	93	32	6	16	44	1.74
13844474--13844572	21	4.8	20	81	10	110	24	35	19	21	1.96
13844593--13844646	20	2.6	21	91	2	83	22	25	25	25	2.00
13849167--13849218	12	4.4	12	79	13	63	76	7	13	1	1.07
13849155--13849225	22	3.2	22	84	4	97	77	9	11	1	1.06
13862966--13863018	17	3.1	17	88	0	79	41	5	15	37	1.70
13868991--13869018	13	2.2	13	100	0	56	32	7	7	53	1.55
13869528--13869553	13	2.0	13	100	0	52	38	23	15	23	1.92
13872953--13873041	44	2.0	46	86	4	128	55	2	35	6	1.39
13872972--13873041	22	3.0	23	74	16	65	58	2	32	5	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13872954--13873072	44	2.6	44	80	10	123	55	2	33	8	1.43
13875364--13875660	90	3.3	90	89	1	434	30	21	10	37	1.87
13875357--13875660	45	6.7	45	85	1	394	30	21	10	38	1.86
13880836--13880900	23	2.8	23	95	0	112	27	26	23	23	2.00
13891207--13891591	45	8.6	45	83	2	427	30	20	10	38	1.86
13922154--13922188	13	2.7	13	95	0	61	45	20	5	28	1.73
13927877--13927979	45	2.2	45	83	10	120	73	6	4	14	1.20
13928253--13928317	17	3.8	17	89	4	87	30	18	35	15	1.92
13929204--13929239	16	2.2	16	90	0	54	69	2	0	27	1.02
13929194--13929239	9	4.8	10	80	15	53	71	2	0	26	0.97
13929264--13929297	16	2.1	17	88	5	52	55	0	0	44	0.99
13929301--13929555	37	7.1	36	79	10	240	42	5	3	47	1.46
13929561--13929589	2	15.0	2	92	7	51	51	0	0	48	1.00
13930294--13931297	85	11.8	85	83	2	1136	25	18	20	34	1.96
13930325--13931297	171	5.7	171	83	1	1166	25	18	20	34	1.96
13932954--13932989	18	2.1	17	89	5	54	58	2	11	27	1.46
13935993--13936030	19	2.1	19	95	5	69	57	0	5	36	1.21
13936483--13936533	18	2.8	18	75	3	57	74	7	5	11	1.21
13936628--13936704	3	25.7	3	91	0	127	63	0	3	32	1.12
13938463--13939252	417	1.9	417	88	3	1189	44	7	9	38	1.66
13946664--13946707	19	2.3	19	92	0	70	40	15	6	36	1.74
13947211--13947336	30	4.1	30	78	9	128	33	13	26	26	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13947248--13947300	17	3.1	17	68	10	54	28	11	28	32	1.91
13947212--13947333	64	1.9	64	84	3	165	32	12	27	27	1.92
13952435--13952491	30	1.9	30	88	0	87	28	14	28	29	1.95
13971042--13971079	10	3.8	10	96	0	67	60	18	10	10	1.57
13971343--13971369	14	1.9	14	100	0	54	59	14	11	14	1.62
13973502--13973554	21	2.5	21	84	0	70	20	24	20	33	1.97
13973544--13973881	20	16.6	20	81	4	259	36	20	18	25	1.95
13973544--13973901	41	8.8	41	80	6	322	35	20	18	25	1.95
13974455--13974547	33	2.8	33	88	1	123	44	24	20	10	1.83
13974590--13974665	20	3.9	19	82	5	80	13	23	19	43	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   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