genome.fa.s8364.2.7.7.80.10.50.1000.13.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: VEPZ01008364.1 Hibiscus syriacus cultivar Beakdansim tig00111105_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5892847

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   

This is table  13  of  27  ( 3136 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)
2950540--2951520	490	2.0	490	99	0	1953	32	17	18	31	1.94
2954977--2955005	12	2.3	13	94	5	51	68	6	17	6	1.34
2958020--2958054	15	2.3	15	100	0	70	20	25	14	40	1.90
2959382--2959415	15	2.3	15	94	0	59	32	32	20	14	1.93
2959500--2959580	29	2.8	29	92	3	137	17	24	14	43	1.87
2959580--2959615	7	5.4	7	87	12	58	41	27	0	30	1.56
2964008--2964155	67	2.2	65	81	10	167	30	27	19	22	1.98
2965288--2965337	22	2.3	21	80	10	55	42	4	14	40	1.64
2965828--2965895	23	3.0	23	83	10	95	17	23	25	33	1.96
2970906--2970973	35	1.9	36	82	8	86	50	2	4	42	1.37
2971386--2971441	22	2.5	22	80	11	60	67	0	3	28	1.07
2971650--2971744	14	6.2	15	74	14	61	38	2	0	58	1.10
2971707--2971752	7	6.4	7	82	5	56	30	0	0	69	0.89
2972351--2972383	8	4.1	8	92	0	57	27	0	0	72	0.85
2974160--2974341	59	3.1	59	100	0	364	44	1	1	52	1.20
2993075--2993167	12	7.8	12	72	9	73	50	16	13	19	1.78
2993069--2993144	24	3.1	25	77	7	93	53	15	13	17	1.72
2999508--2999557	2	25.0	2	100	0	100	50	0	0	50	1.00
3000595--3000772	87	2.0	87	98	0	347	22	32	18	26	1.97
3011014--3011040	14	1.9	14	100	0	54	14	22	11	51	1.73
3011782--3011840	28	2.1	28	100	0	118	30	10	38	20	1.86
3014086--3014157	35	2.0	37	89	5	112	19	30	29	20	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3014721--3014884	31	5.3	31	97	0	310	20	20	21	37	1.94
3014721--3014907	93	2.0	93	90	4	297	21	19	21	37	1.94
3018646--3018716	36	2.0	35	89	8	108	15	32	32	19	1.93
3019275--3019438	31	5.3	31	97	0	310	20	20	21	37	1.94
3019275--3019461	93	2.0	93	90	4	297	21	19	21	37	1.94
3019953--3020160	103	2.0	105	98	1	402	34	12	22	31	1.91
3023249--3023287	20	2.0	20	85	10	53	20	30	30	17	1.96
3023848--3024001	31	5.0	31	91	4	242	19	19	23	37	1.94
3025774--3025801	9	3.1	9	100	0	56	78	0	0	21	0.75
3026336--3026376	21	2.0	20	85	4	55	56	17	24	2	1.53
3032355--3032438	40	2.1	40	97	0	159	48	22	13	15	1.79
3032362--3032426	19	3.3	19	67	23	53	49	21	12	16	1.79
3034170--3034219	21	2.4	21	96	0	91	38	2	0	60	1.09
3036884--3036910	2	13.5	2	100	0	54	51	0	0	48	1.00
3040401--3040755	177	2.0	178	99	0	703	36	17	20	25	1.94
3050574--3050603	7	4.3	7	100	0	60	30	30	0	40	1.57
3058267--3058316	20	2.5	20	93	0	82	22	32	22	24	1.98
3058850--3059175	163	2.0	163	97	2	620	32	25	14	27	1.94
3059215--3059279	32	2.0	32	90	0	103	29	10	24	35	1.89
3059413--3059448	14	2.6	14	91	8	56	55	19	19	5	1.62
3061563--3061985	140	3.0	140	95	0	756	29	12	14	43	1.82
3061956--3062052	20	4.8	20	84	5	124	31	19	19	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3062058--3062102	20	2.3	19	84	3	54	31	20	20	28	1.97
3062252--3062284	14	2.4	14	100	0	66	45	21	0	33	1.52
3062181--3062347	77	2.1	78	91	4	264	49	17	2	29	1.61
3062203--3062328	36	3.4	36	71	14	119	50	16	3	28	1.63
3064342--3064384	19	2.2	20	91	4	70	48	23	13	13	1.79
3064370--3064423	20	2.7	21	74	8	67	44	22	20	12	1.85
3064371--3064439	20	3.5	19	73	15	59	39	21	20	18	1.93
3064444--3064506	19	3.3	19	86	4	83	46	25	15	12	1.82
3064506--3064581	33	2.3	34	93	2	127	15	21	19	43	1.88
3064573--3064621	20	2.5	20	93	0	80	18	20	26	34	1.95
3066519--3066661	20	7.2	20	83	1	144	41	23	17	18	1.90
3067035--3067091	22	2.6	22	85	0	78	17	15	42	24	1.88
3067253--3067338	20	4.2	20	81	8	111	23	17	27	31	1.97
3067223--3067419	61	3.2	61	74	5	164	27	18	23	30	1.97
3067354--3067400	21	2.2	21	80	0	58	34	19	21	25	1.96
3067272--3067464	41	4.7	41	76	5	126	26	17	24	30	1.97
3068086--3068138	25	2.3	23	83	9	63	43	0	1	54	1.11
3068094--3068155	23	2.6	25	87	5	83	56	0	1	41	1.09
3068121--3068165	23	2.0	23	86	0	63	64	2	0	33	1.06
3068123--3068170	23	2.1	23	84	3	62	68	2	0	29	1.01
3074460--3074494	18	2.0	17	88	5	52	20	14	11	54	1.70
3074974--3075047	19	3.9	19	83	0	67	43	6	17	32	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3075075--3075117	6	7.0	6	78	5	50	58	2	18	20	1.50
3083715--3083812	3	32.3	3	73	20	55	2	30	1	66	1.10
3083745--3083812	17	4.0	17	90	3	93	2	33	0	63	1.10
3083742--3083795	24	2.3	24	90	3	83	1	35	0	62	1.06
3083715--3083794	27	3.0	27	78	10	83	1	31	1	66	1.08
3093762--3093813	27	2.0	25	82	14	61	63	3	0	32	1.12
3094087--3094152	31	2.2	31	97	2	125	42	21	15	21	1.89
3095874--3095925	16	3.2	16	100	0	104	17	19	0	63	1.31
3099493--3099539	21	2.3	21	86	13	64	46	12	19	21	1.82
3100319--3100387	21	3.4	21	76	11	81	26	27	18	27	1.98
3103108--3103150	20	2.2	20	83	8	52	60	4	9	25	1.47
3105244--3105305	25	2.4	26	81	8	81	43	1	1	53	1.20
3106129--3106178	23	2.1	23	81	3	55	6	18	8	68	1.36
3131041--3131108	19	3.9	17	79	12	59	73	0	7	19	1.06
3131065--3131111	13	3.7	13	78	13	53	78	0	6	14	0.93
3131175--3131236	29	2.2	28	85	8	81	74	0	1	24	0.91
3131243--3131370	29	4.5	28	67	22	70	63	2	3	30	1.25
3131384--3131408	13	1.9	13	100	0	50	64	4	8	24	1.38
3131383--3131432	21	2.3	21	79	3	55	66	4	8	22	1.35
3132799--3135861	106	28.9	106	90	2	4583	23	18	24	34	1.96
3135368--3135401	12	2.8	12	100	0	68	32	8	26	32	1.87
3135157--3135610	224	2.0	223	91	0	728	24	17	24	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3135262--3135610	118	3.1	115	88	5	500	24	17	24	33	1.96
3135407--3135811	201	2.0	201	94	0	702	22	19	23	33	1.97
3136727--3136781	22	2.5	22	100	0	110	23	12	27	36	1.91
3137393--3137436	20	2.2	21	84	8	56	4	11	9	75	1.19
3137387--3137473	43	2.0	45	86	11	126	4	12	10	72	1.26
3142000--3142045	19	2.5	17	83	13	56	73	0	8	17	1.07
3142133--3142182	8	5.9	9	81	6	52	76	0	2	22	0.89
3142148--3142192	8	5.2	8	84	12	54	77	0	0	22	0.76
3142148--3142192	18	2.6	16	86	10	54	77	0	0	22	0.76
3142337--3142391	14	3.6	14	77	18	56	67	3	7	21	1.31
3142387--3142413	2	13.5	2	100	0	54	51	0	0	48	1.00
3142912--3143009	37	2.6	37	86	0	133	31	14	14	39	1.86
3144640--3144763	63	2.0	63	84	6	162	26	26	27	19	1.99
3145651--3145755	30	3.5	30	89	1	158	38	22	4	34	1.76
3152015--3152123	31	3.5	31	78	2	101	28	27	26	17	1.98
3171641--3171669	2	14.5	2	100	0	58	51	0	0	48	1.00
3174706--3174814	31	3.5	31	72	9	96	33	17	18	30	1.94
3174737--3174812	32	2.4	32	82	12	95	34	15	21	28	1.94
3176925--3177016	40	2.3	40	94	0	157	32	19	13	34	1.90
3178348--3178389	15	2.6	16	81	11	50	57	7	16	19	1.62
3179886--3179946	26	2.3	26	100	0	122	27	11	13	47	1.77
3180097--3180130	10	3.3	10	87	4	50	2	17	17	61	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3180097--3180138	21	2.0	21	86	9	59	4	21	21	52	1.65
3180933--3180966	2	17.5	2	93	6	61	50	0	0	50	1.00
3192946--3192973	6	4.7	6	100	0	56	82	0	0	17	0.68
3195488--3195551	23	2.8	22	85	4	83	26	26	26	20	1.99
3195567--3195784	103	2.1	103	95	0	391	36	24	13	24	1.92
3196437--3196479	21	2.0	21	81	0	50	16	25	30	27	1.97
3202502--3202565	23	2.8	22	85	4	83	26	26	26	20	1.99
3202584--3202798	103	2.1	103	93	2	378	37	25	12	25	1.90
3203277--3203313	19	1.9	19	88	0	56	10	29	35	24	1.89
3203341--3203383	21	2.0	21	86	0	59	16	23	30	30	1.96

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