genome.fa.s9462.2.7.7.80.10.50.1000.39.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: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  20687664

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   90   91   

This is table  39  of  91  ( 10815 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)
8416945--8417098	65	2.4	64	83	5	186	27	17	23	31	1.97
8418210--8418253	21	2.1	21	82	0	52	31	15	43	9	1.79
8418598--8418684	44	2.0	44	88	4	131	41	13	22	21	1.89
8419847--8419943	44	2.2	44	85	7	126	24	20	28	25	1.99
8425725--8425885	65	2.5	65	83	5	193	29	18	21	29	1.97
8431283--8431307	9	2.8	9	100	0	50	80	0	0	20	0.72
8431368--8431402	2	17.5	2	100	0	70	51	0	0	48	1.00
8431391--8431470	40	2.0	40	86	9	112	57	7	3	31	1.44
8431668--8431692	2	12.5	2	100	0	50	52	0	0	48	1.00
8431949--8431991	18	2.5	17	85	7	61	67	2	4	25	1.22
8433280--8434135	106	8.0	106	86	3	1076	23	18	22	34	1.96
8433279--8434130	212	4.0	213	89	1	1201	23	18	22	34	1.96
8434898--8434971	36	2.0	38	89	5	116	36	14	22	25	1.93
8435461--8435496	18	2.0	18	88	0	54	41	30	8	19	1.81
8436570--8436607	11	3.7	10	83	16	51	2	10	7	78	1.04
8436565--8436612	20	2.3	21	86	13	73	2	12	6	79	1.01
8436558--8436621	18	3.7	17	76	10	58	1	12	7	78	1.03
8441710--8441752	18	2.5	17	85	7	61	67	2	4	25	1.22
8444195--8444300	55	1.9	54	88	0	149	35	21	10	32	1.87
8444269--8444334	32	2.1	32	97	0	123	37	10	9	42	1.71
8444715--8444831	52	2.2	53	80	7	132	25	21	17	35	1.95
8454646--8454702	23	2.5	23	91	0	87	29	15	19	35	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8460622--8460648	13	2.1	13	100	0	54	22	22	7	48	1.75
8468407--8468458	18	2.9	18	85	2	70	26	7	17	48	1.74
8473574--8473640	30	2.2	30	81	5	82	23	8	11	55	1.64
8480360--8480421	30	2.1	29	82	11	74	24	11	11	53	1.69
8485862--8486390	44	12.0	44	84	1	648	25	22	11	41	1.87
8492151--8492500	44	8.0	44	88	1	472	25	21	12	41	1.87
8492257--8492337	25	3.5	24	67	19	64	20	23	13	41	1.88
8501434--8501479	13	3.5	13	91	8	76	19	0	0	80	0.71
8501434--8501470	6	6.0	6	93	6	65	16	0	0	83	0.64
8501434--8501487	25	2.2	25	86	6	74	20	0	1	77	0.86
8504806--8504835	11	2.6	11	94	5	51	30	10	10	50	1.69
8506490--8506566	38	2.0	38	87	5	111	40	33	11	14	1.82
8506275--8507071	268	3.1	259	87	7	1122	36	27	12	23	1.91
8506779--8506857	37	2.1	38	88	2	115	45	32	7	13	1.72
8522918--8523001	43	2.0	43	95	0	150	34	15	23	26	1.95
8532309--8532357	22	2.2	22	88	0	71	34	32	6	26	1.81
8533911--8533936	12	2.2	12	100	0	52	42	0	42	15	1.47
8539316--8539346	2	15.5	2	100	0	62	48	0	0	51	1.00
8540362--8540389	13	2.2	13	100	0	56	35	7	39	17	1.78
8544549--8544580	2	16.0	2	100	0	64	50	0	0	50	1.00
8545333--8545375	21	2.0	21	81	0	50	46	4	2	46	1.36
8546041--8546168	5	25.4	5	88	7	170	39	1	1	57	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8547164--8547202	20	2.0	21	85	10	55	58	5	0	35	1.20
8547983--8548023	22	1.9	21	85	14	57	26	2	4	65	1.25
8553234--8553280	21	2.2	21	96	0	85	17	19	19	44	1.87
8553957--8554147	2	92.0	2	71	18	124	45	4	4	46	1.43
8553957--8554147	42	4.3	43	72	20	144	45	4	4	46	1.43
8554023--8554073	11	4.5	11	82	4	66	47	7	3	41	1.51
8554023--8554072	23	2.2	23	92	3	84	46	8	4	42	1.52
8553968--8554142	36	4.6	36	71	15	138	44	4	5	46	1.44
8554222--8554266	18	2.5	18	85	0	63	46	2	4	46	1.35
8569953--8570012	30	2.0	30	100	0	120	40	10	16	33	1.82
8578744--8579043	149	2.0	149	94	0	528	31	18	16	33	1.93
8587454--8587902	149	3.0	149	97	0	844	30	20	16	33	1.94
8588947--8589384	54	8.2	54	82	6	466	35	19	16	28	1.94
8588944--8589384	161	2.7	157	83	5	517	35	19	16	28	1.93
8590633--8590671	14	2.8	14	84	0	51	56	5	7	30	1.49
8590800--8590854	16	3.4	16	79	0	65	36	16	25	21	1.94
8591517--8591550	14	2.2	16	90	10	54	73	0	2	23	0.97
8591513--8591557	22	2.0	22	83	8	56	73	0	2	24	0.95
8598024--8598108	29	2.9	29	81	5	100	30	20	7	42	1.78
8598162--8598220	29	2.0	29	86	0	82	25	22	10	42	1.84
8598680--8599139	45	11.5	44	68	24	311	28	25	10	34	1.90
8598669--8599149	79	6.1	79	88	0	703	28	24	10	36	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8598793--8599094	34	7.9	34	68	23	149	29	25	10	35	1.89
8600816--8600914	51	1.9	51	87	4	146	27	18	20	34	1.95
8608847--8608884	19	2.0	19	94	0	67	26	23	10	39	1.87
8611069--8611094	13	2.0	13	100	0	52	38	38	0	23	1.55
8627464--8627535	32	2.2	32	100	0	144	34	19	13	31	1.91
8628604--8628667	27	2.3	28	76	7	69	43	20	12	23	1.85
8629632--8629738	32	3.3	32	82	0	124	19	25	28	27	1.99
8630623--8630675	22	2.6	21	82	8	65	28	16	26	28	1.97
8630549--8630729	96	1.9	94	81	10	217	29	14	23	32	1.94
8630739--8630780	22	1.9	22	90	0	66	33	14	28	23	1.94
8633101--8633156	20	2.8	20	97	2	105	23	16	33	26	1.95
8633175--8633246	19	3.5	20	81	10	83	29	15	26	29	1.96
8633101--8633340	94	2.6	93	80	7	245	28	15	26	30	1.96
8633283--8633340	22	2.8	20	87	10	89	31	12	31	25	1.92
8633744--8633894	79	1.9	79	91	2	250	35	9	25	29	1.88
8633832--8634054	45	5.0	44	83	6	207	36	10	21	30	1.87
8633869--8634054	45	4.2	45	84	6	225	38	9	20	31	1.85
8634804--8634880	31	2.5	31	84	2	100	15	27	29	27	1.96
8641104--8641152	10	5.0	10	76	14	57	18	22	28	30	1.97
8641105--8641158	10	5.7	9	77	12	54	14	24	31	29	1.95
8641104--8641174	19	3.7	19	86	1	88	16	23	30	28	1.97
8641168--8641213	17	2.7	17	100	0	92	17	41	23	17	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8641210--8641246	19	1.9	19	100	0	74	16	27	29	27	1.97
8642115--8642238	63	2.0	63	84	6	162	17	28	28	25	1.98
8642115--8642199	31	2.7	31	77	1	89	15	30	29	24	1.95
8645999--8646039	13	3.1	13	82	6	55	31	26	17	24	1.97
8645999--8646036	14	2.8	14	88	4	51	31	26	18	23	1.97
8646105--8646137	17	1.9	17	100	0	66	48	6	6	39	1.53
8647965--8648024	22	2.7	22	89	0	102	23	15	18	43	1.87
8649313--8649365	27	2.0	27	84	0	70	43	18	15	22	1.87
8654213--8654271	22	2.6	23	81	10	77	20	27	13	38	1.90
8661780--8661956	77	2.3	77	98	1	338	25	10	18	45	1.82
8663253--8663362	37	2.9	38	86	2	152	44	4	2	48	1.37
8663261--8663384	37	3.3	38	84	3	117	47	4	3	44	1.40
8663256--8663401	75	2.0	74	79	6	161	45	6	3	44	1.45
8663356--8663431	38	1.9	38	81	5	89	47	7	5	39	1.55
8663939--8663968	15	2.0	15	93	0	51	33	0	3	63	1.11
8663931--8663968	18	2.1	18	90	9	60	34	0	2	63	1.09
8663927--8663966	12	3.2	13	86	6	57	35	0	2	62	1.09
8663937--8663978	18	2.3	19	79	4	50	38	0	4	57	1.20
8664945--8664988	2	22.0	2	90	0	70	50	4	0	45	1.22
8665217--8665252	18	2.1	17	89	5	54	38	2	5	52	1.39
8672598--8672639	21	2.0	21	90	9	68	59	9	4	26	1.48
8676400--8676579	90	2.0	90	92	0	297	29	23	13	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8677419--8677515	8	12.5	8	68	14	51	45	1	2	51	1.19
8677461--8677540	39	2.1	39	81	9	92	45	1	2	51	1.22
8677465--8677506	21	2.0	21	85	0	57	45	0	0	54	0.99
8677697--8677751	16	3.2	19	73	19	57	47	0	0	52	1.00
8678104--8678151	19	2.7	17	76	17	53	43	22	6	27	1.77
8681026--8681100	24	3.2	24	66	27	61	42	14	2	40	1.60
8681013--8681101	46	1.9	46	95	0	160	44	13	2	39	1.56
8681053--8681686	216	2.9	216	93	0	1056	44	15	10	29	1.80
8685289--8685316	2	14.0	2	100	0	56	50	0	0	50	1.00
8688363--8688416	19	2.8	19	85	0	72	12	16	16	53	1.73

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   90   91