genome.fa.s1129.2.7.7.80.10.50.1000.49.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: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  21326069

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   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   

This is table  49  of  89  ( 10573 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)
10947142--10947319	88	2.0	88	95	0	320	20	19	15	43	1.87
10947540--10947580	2	20.5	2	100	0	82	48	0	0	51	1.00
10952677--10952746	30	2.4	29	76	4	68	35	4	4	55	1.39
10955879--10955947	33	2.1	33	88	0	102	28	14	17	39	1.89
10957905--10957929	3	8.3	3	100	0	50	32	0	0	68	0.90
10965458--10965483	11	2.4	11	100	0	52	26	0	53	19	1.45
10968674--10968721	22	2.2	22	88	7	71	27	2	37	33	1.69
10972508--10972682	72	2.4	72	82	1	217	33	25	16	24	1.96
10973158--10973199	22	2.0	22	90	4	68	38	2	9	50	1.48
10973160--10973206	22	2.2	21	84	3	58	40	4	8	46	1.54
10973192--10973219	14	2.0	14	100	0	56	42	7	7	42	1.59
10973187--10973333	37	3.8	37	78	12	138	44	4	7	42	1.53
10973179--10973349	38	4.5	36	78	15	150	43	4	8	43	1.55
10973298--10973330	16	2.1	16	88	5	50	45	0	9	45	1.35
10976715--10976795	26	3.2	26	91	1	101	20	12	30	35	1.90
10979836--10979885	25	2.0	25	100	0	100	20	20	20	40	1.92
10982236--10982308	30	2.5	29	80	4	92	43	9	19	27	1.81
10982671--10982734	30	2.1	31	91	2	103	25	3	32	39	1.71
10983417--10983486	31	2.3	29	82	4	86	38	10	17	34	1.83
10986055--10986106	25	2.1	25	82	7	61	44	11	11	32	1.77
10988412--10988446	14	2.5	14	95	0	61	25	8	25	40	1.84
10991512--10991587	25	3.0	26	88	3	109	46	10	10	32	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11004256--11004376	51	2.5	47	80	12	120	41	6	19	32	1.78
11015446--11015505	30	2.0	30	96	0	111	31	23	13	31	1.93
11023174--11023230	26	2.1	27	83	3	71	66	8	19	5	1.38
11032275--11032308	15	2.3	15	100	0	68	32	5	26	35	1.81
11032389--11032426	2	19.5	2	94	5	69	52	0	0	47	1.00
11035142--11035371	102	2.3	102	82	0	289	36	24	15	23	1.93
11037345--11037400	2	28.0	2	96	0	103	51	0	0	48	1.00
11038840--11038893	21	2.9	17	75	19	54	48	20	7	24	1.75
11043842--11043940	41	2.4	41	81	0	126	32	20	21	26	1.97
11044087--11044148	23	2.7	23	92	0	106	46	16	14	22	1.83
11044537--11044937	83	4.9	83	79	3	369	34	17	16	30	1.93
11044531--11044937	165	2.5	164	81	4	435	34	17	16	31	1.93
11048496--11048553	30	1.9	31	92	3	100	20	10	10	58	1.60
11048496--11048584	31	2.9	29	82	11	99	20	12	10	57	1.63
11057658--11057741	23	3.8	23	85	4	102	25	29	25	20	1.99
11059312--11059352	18	2.3	18	87	8	57	48	19	29	2	1.61
11065171--11065218	23	2.1	23	88	0	69	50	2	29	18	1.59
11065918--11065983	18	3.7	18	91	0	105	22	45	16	15	1.85
11068422--11068473	21	2.6	21	90	6	81	34	13	5	46	1.67
11069407--11069456	24	2.1	23	85	7	64	22	14	0	64	1.29
11068565--11069614	526	2.0	526	92	0	1742	27	22	11	39	1.87
11071659--11071750	46	2.0	46	97	0	175	32	25	10	31	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11074692--11074744	16	3.3	16	75	17	56	32	1	1	64	1.15
11074986--11075014	12	2.3	13	94	5	51	20	6	0	72	1.07
11077333--11077361	12	2.3	13	94	5	51	20	6	0	72	1.07
11082927--11082955	13	2.2	13	100	0	58	51	6	0	41	1.28
11086271--11086317	21	2.3	20	79	13	51	34	19	14	31	1.92
11086547--11086660	42	2.7	41	77	6	122	30	23	19	26	1.98
11086255--11087064	277	2.9	272	87	5	1139	33	21	15	29	1.94
11086848--11086937	42	2.1	43	82	11	116	32	22	17	27	1.97
11086932--11087106	97	1.8	96	87	3	262	34	20	12	33	1.89
11088906--11089022	11	9.9	12	69	21	61	1	21	0	76	0.94
11088901--11088950	10	4.7	11	79	13	52	0	24	2	74	0.93
11088899--11088981	22	3.9	21	75	16	71	2	19	1	77	0.95
11088899--11089024	15	8.6	15	70	24	83	1	19	0	77	0.90
11088959--11089024	8	8.2	8	85	9	73	0	18	0	81	0.68
11088931--11089009	30	2.6	30	86	8	97	2	17	1	78	0.93
11088901--11089024	23	5.2	24	75	15	114	1	20	0	77	0.90
11090404--11090430	14	1.9	14	100	0	54	44	18	22	14	1.86
11090424--11090460	13	2.6	15	79	16	51	45	10	29	13	1.77
11095197--11095471	149	1.9	149	84	5	378	41	9	18	30	1.82
11095197--11095535	73	4.6	73	76	10	276	40	10	17	31	1.84
11095079--11095535	36	12.4	37	70	12	226	40	10	17	32	1.83
11095606--11095640	18	2.0	18	94	5	63	51	5	11	31	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11101974--11102016	15	2.9	15	89	0	59	25	16	18	39	1.91
11104306--11104483	90	2.0	90	92	0	293	37	10	6	46	1.63
11109834--11109871	15	2.5	15	91	0	58	21	18	28	31	1.97
11114930--11115179	138	1.8	138	87	5	380	41	13	14	30	1.85
11115245--11115287	22	2.0	22	81	9	52	58	13	6	20	1.59
11116914--11116962	20	2.8	18	79	20	59	40	18	6	34	1.75
11116917--11116942	5	5.2	5	100	0	52	42	19	0	38	1.51
11121145--11121175	16	1.9	16	100	0	62	58	6	16	19	1.59
11122051--11122105	20	2.9	19	78	7	58	25	0	3	70	1.03
11122062--11122103	20	2.2	20	86	4	59	21	0	2	76	0.90
11122294--11122344	26	2.0	24	82	14	59	23	11	0	64	1.26
11126469--11127327	84	10.4	82	78	5	771	31	25	18	24	1.98
11126469--11127327	165	5.2	163	81	4	880	31	25	18	24	1.98
11126469--11127327	249	3.5	249	88	0	1236	31	25	18	24	1.98
11127908--11127981	37	2.0	37	91	0	121	40	9	13	36	1.77
11128410--11128451	19	2.2	20	87	12	61	35	2	0	61	1.09
11128692--11128720	3	9.7	3	100	0	58	31	0	0	68	0.89
11128691--11128734	9	4.6	10	86	13	58	27	2	0	70	0.99
11130674--11130715	19	2.2	19	100	0	84	38	9	23	28	1.86
11130805--11130874	35	2.0	36	88	5	108	45	8	12	32	1.73
11131030--11131464	115	3.8	115	82	3	491	24	20	17	38	1.93
11132336--11132362	13	2.1	13	100	0	54	62	0	22	14	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11132885--11132957	7	9.9	7	77	14	58	41	1	5	52	1.33
11132948--11133005	18	3.1	18	83	14	73	44	0	6	48	1.29
11132946--11133005	20	3.1	20	77	20	65	45	0	6	48	1.29
11133017--11133047	16	1.9	16	93	0	53	51	0	6	41	1.27
11133716--11133912	100	2.0	101	89	1	306	39	19	23	17	1.92
11134064--11134108	7	6.4	7	100	0	90	57	0	42	0	0.98
11135575--11135668	2	47.0	2	90	4	145	47	0	2	50	1.13
11135917--11135961	18	2.5	18	82	7	56	48	4	4	42	1.43
11138366--11138396	13	2.4	13	94	0	53	45	0	22	32	1.53
11139895--11140042	72	2.1	72	81	2	172	34	22	15	27	1.94
11141320--11141359	20	2.0	20	90	4	64	55	7	0	37	1.29
11155182--11155208	13	2.1	13	100	0	54	29	0	48	22	1.51
11157616--11157664	22	2.2	22	92	0	80	48	2	38	10	1.48
11163232--11163270	6	6.5	6	100	0	78	33	48	0	17	1.48
11166415--11166446	13	2.5	13	95	5	57	68	9	15	6	1.36
11168891--11168936	14	3.2	15	77	20	53	76	0	0	23	0.79
11168888--11168936	20	2.5	19	84	12	64	77	0	0	22	0.77
11168967--11169010	9	4.7	9	78	10	52	81	0	4	13	0.83
11168968--11169010	10	4.4	10	79	2	52	83	0	4	11	0.78
11169107--11169174	11	5.9	11	74	17	50	76	1	0	22	0.87
11169080--11169179	47	2.1	47	83	9	123	72	2	3	23	1.09
11169044--11169179	42	3.1	43	73	15	111	70	2	2	23	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11169221--11169279	12	4.9	12	93	0	55	49	6	0	44	1.29
11169237--11169298	2	31.5	2	88	9	92	51	0	3	45	1.17
11170750--11170956	110	1.9	110	86	2	299	23	19	21	35	1.96
11171817--11171857	21	2.0	21	85	4	57	43	12	17	26	1.84
11171661--11171847	65	2.8	67	82	4	218	36	8	20	33	1.83
11171805--11172126	36	9.3	36	71	15	194	40	12	18	28	1.88
11171817--11171908	37	2.5	36	82	1	103	42	15	19	22	1.89
11171751--11172010	138	1.9	138	86	0	367	40	12	19	27	1.87
11171839--11172163	102	3.2	102	79	3	386	40	12	17	28	1.87
11172887--11172975	32	2.8	32	89	1	126	37	20	11	31	1.88

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   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89