genome.fa.s8242.2.7.7.80.10.50.1000.40.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  40  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)
9748006--9748102	43	2.4	38	78	11	95	32	10	31	24	1.89
9748008--9748104	21	4.7	22	74	11	89	31	11	31	24	1.91
9753520--9753581	2	31.0	2	90	0	97	48	3	1	46	1.28
9753918--9754680	56	13.9	55	73	11	519	31	19	20	28	1.97
9753988--9754736	111	6.8	111	81	5	808	32	19	20	28	1.97
9754384--9754546	51	3.1	52	74	13	145	31	18	20	29	1.96
9755078--9755230	45	3.4	45	78	7	143	42	20	13	24	1.87
9756606--9756635	14	2.1	15	93	6	53	23	23	6	46	1.75
9756835--9756892	2	29.5	2	96	3	109	50	0	0	50	1.00
9758496--9758537	20	2.0	21	82	13	52	52	9	11	26	1.68
9764753--9764837	32	2.6	32	96	3	152	54	4	0	41	1.21
9766564--9766868	164	1.9	165	87	0	450	29	26	15	28	1.96
9766488--9766868	55	6.9	55	82	2	399	30	26	14	27	1.95
9766890--9766995	37	2.9	37	81	2	106	23	17	18	39	1.92
9768196--9768239	11	3.8	11	85	8	61	6	11	0	81	0.86
9768229--9768445	8	26.2	8	67	28	50	10	19	0	68	1.24
9768201--9768249	24	2.1	23	85	11	64	6	14	0	79	0.91
9768248--9768281	16	2.1	16	100	0	68	11	35	0	52	1.38
9768286--9768349	18	3.6	18	86	12	87	14	14	1	70	1.25
9768289--9768335	10	4.9	10	78	19	55	17	17	0	65	1.27
9768340--9768373	6	5.7	6	92	0	59	11	17	0	70	1.16
9768281--9768435	38	3.9	38	77	14	145	10	17	0	71	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9768302--9768414	20	5.7	18	74	21	77	9	15	0	73	1.14
9768364--9768450	17	4.8	17	76	14	59	6	18	1	73	1.12
9771142--9771184	21	2.0	21	100	0	86	41	20	4	32	1.73
9778036--9778129	45	2.0	45	83	4	116	32	20	10	36	1.87
9781809--9781843	2	17.5	2	100	0	70	48	0	0	51	1.00
9782141--9782258	60	2.0	60	96	0	218	30	14	20	34	1.92
9794136--9794168	12	2.8	12	100	0	66	60	0	0	39	0.97
9796290--9796377	39	2.2	42	84	10	112	64	1	2	31	1.13
9797411--9797598	83	2.2	84	80	5	220	23	19	21	35	1.96
9797778--9798036	110	2.4	108	82	6	312	23	20	24	32	1.98
9798753--9798935	65	2.8	65	85	4	224	38	8	21	31	1.84
9798884--9799109	36	6.4	36	74	10	200	39	13	19	27	1.89
9798830--9799087	138	1.9	138	86	1	374	39	12	20	27	1.89
9798918--9799153	101	2.3	101	81	3	251	38	12	19	29	1.89
9800541--9800670	69	2.0	64	88	11	194	24	14	23	37	1.92
9800721--9800794	7	10.1	7	72	11	51	2	17	4	75	1.07
9800721--9800793	14	5.1	14	77	11	76	2	17	4	75	1.08
9802269--9802426	79	2.0	79	96	0	289	29	23	13	32	1.93
9803987--9804062	11	7.3	10	74	21	59	75	0	3	21	0.97
9803980--9804137	10	15.4	10	69	17	60	70	1	2	25	1.07
9803985--9804062	31	2.6	30	84	15	92	75	0	3	20	0.95
9803979--9804047	9	7.0	9	75	16	57	76	0	2	20	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9806770--9806941	89	1.9	89	91	2	283	44	7	10	37	1.67
9814662--9814716	25	2.2	25	78	15	60	34	0	5	60	1.20
9814744--9814829	3	28.7	3	95	0	154	36	0	0	63	0.94
9821424--9821483	29	2.1	27	82	11	68	33	1	6	58	1.34
9821479--9821523	22	2.0	22	86	0	63	40	11	4	44	1.60
9821808--9821848	17	2.4	17	84	15	57	58	2	4	34	1.32
9821502--9822008	197	2.6	197	88	2	714	46	9	5	38	1.58
9829684--9829713	12	2.5	12	94	0	51	30	3	33	33	1.74
9830358--9830397	3	13.3	3	100	0	80	32	0	0	67	0.91
9830446--9830479	17	2.0	17	88	0	50	38	26	11	23	1.89
9831274--9831312	21	1.9	21	89	5	62	17	23	17	41	1.91
9835074--9835111	15	2.6	15	87	4	51	28	13	7	50	1.69
9843423--9843539	3	39.3	3	94	1	209	34	0	0	64	0.99
9844515--9844554	2	20.0	2	100	0	80	50	0	0	50	1.00
9844757--9844800	22	2.0	22	81	4	52	22	2	15	59	1.48
9847081--9847129	21	2.3	21	82	0	53	67	4	2	26	1.19
9854855--9854893	16	2.4	16	95	0	69	51	12	0	35	1.40
9854859--9854897	20	2.0	20	100	0	78	51	12	0	35	1.40
9856785--9856830	23	2.0	23	83	8	58	63	0	0	36	0.95
9862132--9862170	21	1.9	19	85	10	51	33	10	0	56	1.33
9864354--9864477	2	64.0	2	78	12	134	43	0	4	50	1.29
9864354--9864477	40	3.1	40	86	9	148	43	0	4	50	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9865560--9865627	29	2.4	28	80	9	75	33	4	0	61	1.16
9865571--9865627	29	2.0	29	85	0	78	35	3	0	61	1.13
9865743--9865767	10	2.5	10	100	0	50	0	8	0	92	0.40
9865733--9865767	18	1.9	18	94	0	61	0	8	2	88	0.61
9865826--9865903	21	3.7	20	73	13	68	15	6	2	75	1.11
9865980--9866036	8	7.1	8	78	7	62	22	3	1	71	1.10
9865943--9866036	40	2.4	39	84	12	113	20	4	3	72	1.16
9871195--9872537	169	7.9	170	85	2	1607	35	22	18	24	1.96
9871195--9872574	85	16.3	85	83	2	1585	35	21	18	24	1.96
9873333--9873366	2	17.5	2	87	6	52	47	0	2	50	1.16
9874646--9874711	17	4.1	16	77	14	55	18	4	3	74	1.12
9874677--9874721	23	1.9	24	82	13	58	20	4	0	75	0.97
9874855--9874902	21	2.4	19	80	13	51	14	4	0	81	0.84
9874996--9875161	12	13.5	12	70	16	101	19	3	2	74	1.07
9875032--9875066	16	2.2	16	89	0	52	14	8	2	74	1.17
9875057--9875108	6	8.5	6	76	19	54	17	1	1	78	0.93
9875042--9875108	17	3.8	17	77	16	57	17	2	1	77	0.97
9875016--9875142	56	2.3	56	75	17	131	18	3	3	74	1.12
9875042--9875161	28	4.4	27	75	15	97	19	2	2	75	1.03
9875049--9875161	25	4.5	24	75	19	97	19	2	2	75	1.05
9875928--9876023	26	3.5	28	67	22	69	60	4	0	35	1.16
9875984--9876051	34	2.1	33	83	8	86	66	2	0	30	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9878594--9878621	14	2.0	14	100	0	56	28	14	14	42	1.84
9893549--9893944	54	7.4	53	86	6	519	27	17	19	35	1.94
9900429--9900709	54	5.2	54	85	7	365	25	16	19	39	1.91
9905106--9905203	20	4.9	20	79	3	72	27	18	24	29	1.98
9906695--9906753	18	3.3	18	79	11	68	45	5	1	47	1.34
9906701--9906759	18	3.2	18	80	9	57	47	5	1	45	1.34
9906714--9906873	13	11.5	13	70	16	54	47	3	5	43	1.43
9906821--9906973	2	80.5	2	66	21	62	45	1	6	46	1.37
9906821--9906902	31	2.6	32	79	14	91	48	0	3	47	1.19
9906924--9906973	11	4.2	12	78	14	50	48	2	4	46	1.32
9907237--9907321	18	4.7	18	92	2	100	50	2	2	44	1.27
9907248--9907321	2	37.0	2	89	5	114	51	1	1	45	1.18
9907421--9907458	14	2.7	14	87	0	58	47	28	5	18	1.70
9907481--9907583	35	2.9	36	80	2	120	42	6	9	40	1.64
9907504--9907533	13	2.3	13	94	0	51	46	3	6	43	1.46
9907554--9907612	22	2.7	22	78	17	68	42	8	5	44	1.57
9907672--9907710	14	2.8	14	92	0	51	51	2	0	46	1.14
9907665--9907710	21	2.2	21	84	0	56	47	4	0	47	1.21
9907750--9907861	41	3.0	38	80	15	119	45	5	3	45	1.43
9907859--9908009	6	25.3	6	72	24	74	49	0	1	49	1.14
9907842--9907967	31	4.0	30	77	16	105	46	1	2	49	1.24
9907901--9907926	7	3.7	7	100	0	52	57	0	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9907888--9908013	37	3.1	42	80	17	135	50	0	0	49	1.06
9907859--9908009	28	5.3	28	78	15	125	49	0	1	49	1.14
9907944--9908012	15	4.9	15	77	18	69	47	0	0	52	1.00
9907857--9908029	28	6.5	26	75	19	112	47	0	1	49	1.15
9908272--9908316	18	2.4	19	81	3	56	15	33	4	46	1.66
9908350--9908544	103	1.9	102	80	6	223	31	25	7	35	1.84
9909045--9909083	20	2.0	20	89	0	60	20	0	5	74	1.01
9910543--9910595	21	2.5	21	93	0	88	11	15	22	50	1.75
9911727--9911889	65	2.5	64	82	3	202	27	15	25	31	1.96
9911837--9911887	19	2.7	19	85	8	70	25	15	35	23	1.94

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