genome.fa.s9634.2.7.7.80.10.50.1000.22.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: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  17174986

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   

This is table  22  of  78  ( 9351 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)
4696263--4696333	33	2.2	33	94	0	124	47	16	23	11	1.79
4696713--4696907	20	9.6	20	83	7	232	18	18	27	35	1.95
4698626--4698722	38	2.5	39	88	1	142	23	29	22	23	1.99
4698895--4698966	37	1.9	37	94	0	126	31	18	5	44	1.72
4699375--4699445	37	2.0	37	91	5	119	22	32	28	16	1.96
4709028--4709134	56	1.9	56	81	9	128	32	20	17	28	1.96
4714934--4715028	23	4.4	21	75	9	68	27	26	20	26	1.99
4714934--4715028	44	2.2	42	87	7	129	27	26	20	26	1.99
4714952--4715053	44	2.4	42	77	9	116	26	26	22	24	2.00
4716578--4716621	21	2.1	21	82	0	52	9	38	15	36	1.80
4717622--4717677	20	2.8	20	97	0	103	30	35	16	17	1.92
4717707--4717831	65	1.9	64	83	6	162	31	21	18	28	1.97
4717803--4717851	19	2.6	19	84	9	57	24	30	18	26	1.98
4718934--4718985	2	26.0	2	100	0	104	50	0	0	50	1.00
4718855--4719087	116	2.0	115	94	2	414	48	8	8	33	1.64
4719056--4719087	2	16.0	2	93	0	55	46	0	3	50	1.17
4719244--4719302	27	2.2	27	85	11	77	74	5	6	13	1.19
4720521--4720553	7	4.7	7	96	0	57	54	3	0	42	1.15
4721265--4722102	85	9.8	85	86	2	1041	26	17	20	35	1.94
4721265--4722103	256	3.3	256	84	3	1067	26	17	20	35	1.94
4721313--4722100	341	2.3	340	89	2	1209	26	17	20	35	1.95
4722456--4722492	3	11.7	3	88	11	56	2	35	0	62	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4722827--4722868	19	2.2	20	82	4	50	40	0	21	38	1.53
4723761--4723805	21	2.1	21	87	0	63	31	28	24	15	1.96
4724617--4724831	31	7.0	31	94	4	366	20	19	23	37	1.94
4727655--4727699	21	2.1	21	87	0	63	31	28	24	15	1.96
4728506--4728723	31	7.0	31	96	1	384	19	18	22	38	1.93
4729775--4729821	21	2.1	21	84	11	58	48	6	21	23	1.72
4730531--4730580	20	2.5	20	90	3	75	42	16	2	40	1.59
4731810--4732067	95	2.7	94	82	4	268	34	18	15	31	1.92
4737812--4737861	23	2.1	25	85	7	68	56	4	6	34	1.43
4742407--4742448	7	6.0	7	82	0	57	16	26	52	4	1.63
4742410--4742453	14	3.1	14	80	0	61	15	25	50	9	1.74
4742407--4742468	28	2.2	28	94	0	106	17	24	50	8	1.73
4745261--4745652	216	1.8	216	94	1	696	49	7	12	30	1.68
4745678--4745754	2	37.5	2	70	14	50	49	2	5	42	1.39
4745676--4745754	20	3.9	20	77	11	81	49	2	5	43	1.38
4745822--4745911	9	9.8	9	70	13	51	47	2	3	46	1.31
4745864--4745956	15	6.3	15	72	11	52	44	0	5	50	1.25
4745899--4745955	22	2.6	22	88	5	71	45	0	5	49	1.24
4745999--4746072	20	3.5	20	76	16	76	39	6	0	54	1.27
4745999--4746115	33	3.7	33	80	8	111	41	6	2	48	1.43
4746070--4746234	65	2.5	64	98	0	294	44	6	7	41	1.60
4746133--4746278	18	8.4	18	70	18	69	42	6	7	43	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4746198--4746327	38	3.4	38	75	17	128	43	8	6	42	1.60
4746215--4746327	57	1.9	60	85	8	160	43	8	6	41	1.61
4746198--4746329	18	6.9	20	70	24	90	43	8	6	42	1.59
4746304--4746353	24	2.1	24	88	7	75	40	6	10	44	1.63
4746350--4746384	18	1.9	18	88	0	52	42	11	0	45	1.40
4746289--4746469	20	8.7	20	68	20	68	42	9	4	43	1.57
4746377--4746438	27	2.3	27	88	2	90	40	8	4	46	1.55
4746388--4746447	27	2.2	27	90	0	93	36	8	5	50	1.55
4746430--4746498	34	2.0	36	82	5	88	46	8	2	42	1.49
4746520--4746674	33	4.5	33	79	9	159	43	7	7	41	1.62
4746520--4746797	51	5.3	51	78	11	301	43	7	6	42	1.58
4746666--4746783	33	3.8	33	74	17	135	44	5	6	43	1.55
4746544--4746794	18	14.1	18	69	20	154	44	7	7	41	1.59
4746669--4746782	58	2.0	58	94	0	201	43	6	6	43	1.54
4746521--4746818	109	2.8	109	82	9	314	44	7	6	41	1.57
4750325--4750365	17	2.4	17	87	0	55	46	2	2	48	1.28
4750459--4750494	16	2.2	16	90	0	54	36	16	27	19	1.93
4754077--4754114	2	19.0	2	100	0	76	50	0	0	50	1.00
4757157--4757182	13	2.0	13	100	0	52	76	0	23	0	0.78
4757154--4757195	17	2.8	16	79	20	54	71	4	23	0	1.05
4757186--4757226	11	3.7	11	87	9	57	78	9	12	0	0.98
4757153--4757233	33	2.6	31	80	7	92	74	7	18	0	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4758329--4758714	37	11.1	37	68	18	229	32	18	8	39	1.82
4758338--4758716	103	3.7	102	88	1	533	33	18	8	38	1.82
4758553--4758611	19	3.2	19	68	22	61	25	18	10	45	1.81
4758338--4758716	206	1.8	207	89	0	598	33	18	8	38	1.82
4758819--4758894	38	2.0	37	80	12	84	30	19	9	40	1.83
4759004--4759532	36	14.4	36	78	13	394	26	22	13	37	1.92
4759079--4759202	57	2.1	59	94	2	216	25	22	12	39	1.90
4758939--4759410	130	3.5	132	82	12	540	26	22	12	38	1.90
4759173--4759295	57	2.1	58	91	4	196	26	24	13	36	1.92
4759046--4759325	94	3.0	94	94	1	481	26	22	13	37	1.91
4759028--4759500	151	3.2	144	76	15	436	26	22	13	37	1.92
4759334--4759414	42	1.9	43	94	2	146	29	20	12	37	1.90
4759334--4759394	22	2.9	22	65	25	58	32	19	11	36	1.88
4759297--4759450	78	2.0	80	89	5	242	27	20	13	37	1.91
4759403--4759491	15	5.5	15	76	15	88	21	25	16	35	1.94
4759376--4759531	51	3.1	51	72	20	171	25	23	14	36	1.93
4759403--4759527	66	1.9	66	91	3	207	23	24	15	36	1.93
4763483--4763511	2	14.5	2	100	0	58	48	0	0	51	1.00
4763666--4763792	51	2.5	51	85	5	150	15	33	28	22	1.95
4766491--4766616	50	2.5	50	81	0	144	19	29	34	15	1.93
4769083--4769115	15	2.1	16	88	5	50	15	15	6	63	1.49
4773751--4773886	23	6.2	23	78	10	133	50	1	27	21	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4774691--4774716	13	2.0	13	100	0	52	30	7	30	30	1.85
4779725--4779871	21	6.9	21	66	6	80	21	18	23	36	1.95
4780633--4780668	19	1.9	18	94	5	63	30	25	22	22	1.99
4784817--4784862	19	2.4	19	100	0	92	23	21	26	28	1.99
4786890--4786943	21	2.6	20	82	11	56	42	1	5	50	1.36
4786985--4787021	13	2.7	15	80	20	53	45	8	2	43	1.47
4791189--4791292	23	4.4	24	80	4	122	22	22	23	32	1.98
4791189--4791292	24	4.4	24	78	4	104	22	22	23	32	1.98
4792674--4792708	2	18.0	2	88	5	54	51	2	0	45	1.16
4796527--4796681	42	3.8	42	77	10	160	27	20	16	36	1.93
4796693--4796739	14	3.4	14	77	11	51	40	21	2	36	1.65
4799121--4799151	13	2.4	13	100	0	62	41	0	12	45	1.42
4799747--4799776	15	2.0	15	100	0	60	33	0	0	66	0.92
4801064--4801306	43	5.6	43	82	4	258	30	17	26	25	1.97
4801088--4801306	85	2.6	87	83	5	268	29	18	26	26	1.98
4804996--4805117	41	3.0	41	80	2	147	33	17	21	27	1.95
4811636--4811690	19	3.1	18	76	7	58	76	0	18	5	0.97
4811619--4811829	14	14.6	14	70	20	107	76	0	18	4	0.98
4811657--4811832	8	21.1	8	76	16	98	78	0	17	3	0.90
4811685--4811832	37	4.0	36	77	8	136	78	0	17	4	0.90
4811657--4811832	52	3.4	52	74	12	150	78	0	17	3	0.90
4811671--4811831	38	4.3	37	77	10	141	77	0	18	4	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4811649--4811831	7	24.9	7	77	12	138	78	0	17	4	0.92
4814320--4814752	217	2.0	217	97	0	821	34	20	12	32	1.90
4821284--4821416	42	3.3	42	71	8	121	28	21	14	36	1.92
4821284--4822376	80	13.3	79	72	13	530	25	19	16	38	1.92
4821284--4822448	38	28.4	41	71	13	541	25	19	16	38	1.92
4821621--4822448	118	6.9	118	81	6	839	24	18	17	38	1.93
4822056--4822446	42	9.6	43	75	10	213	25	18	17	38	1.92
4822214--4822372	87	1.8	87	86	2	230	28	19	16	35	1.93
4828692--4829237	134	4.1	135	80	4	588	29	17	18	34	1.94
4828706--4829236	268	2.0	267	82	2	654	30	16	19	34	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   74   75   76   77   78