genome.fa.s8061.2.7.7.80.10.50.1000.16.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: VEPZ01008061.1 Hibiscus syriacus cultivar Beakdansim tig00110556_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5800122

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   

This is table  16  of  26  ( 3118 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)
3102899--3102943	18	2.5	18	88	0	72	26	44	15	13	1.83
3103425--3103470	20	2.3	20	84	0	56	36	23	21	17	1.94
3103436--3103491	20	2.8	20	81	2	69	39	21	23	16	1.92
3103480--3103536	14	3.7	14	75	20	60	50	22	15	10	1.74
3103464--3103555	33	2.8	33	98	0	175	46	20	19	13	1.83
3103464--3103560	19	5.6	19	71	22	97	45	20	20	13	1.85
3103567--3103706	20	7.9	18	70	18	89	13	19	22	45	1.85
3103591--3103647	14	3.7	14	75	20	51	12	14	22	50	1.75
3103572--3103664	33	2.8	33	91	1	143	12	17	22	47	1.81
3105566--3105604	14	2.8	14	84	0	51	35	0	17	46	1.49
3106030--3106121	20	4.6	20	73	2	76	20	18	21	39	1.93
3106106--3106157	20	2.5	21	81	3	61	23	23	15	38	1.92
3106941--3106994	24	2.2	24	90	0	81	22	16	20	40	1.91
3107169--3107193	12	2.1	12	100	0	50	72	0	28	0	0.86
3108671--3108797	33	3.8	33	86	4	193	42	18	22	15	1.89
3108672--3108803	66	2.0	66	95	0	237	41	18	22	16	1.90
3108826--3108872	19	2.5	19	96	0	85	12	21	21	44	1.85
3108979--3109015	14	2.6	14	91	0	65	45	24	0	29	1.53
3110386--3110465	42	1.9	42	84	0	106	22	17	38	21	1.93
3110687--3110871	91	2.0	92	88	8	279	47	17	12	22	1.82
3112538--3112711	19	9.8	19	70	21	128	44	20	22	11	1.84
3112587--3112642	14	3.6	14	74	21	58	39	25	25	10	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3112563--3112661	33	3.0	33	93	1	162	41	23	24	11	1.86
3112539--3112716	52	3.4	52	82	7	200	44	20	23	11	1.84
3112641--3112711	33	2.2	33	89	5	108	47	21	21	9	1.79
3112706--3112778	19	3.8	19	78	7	67	13	17	23	45	1.84
3112723--3112775	19	2.7	19	85	2	70	13	18	22	45	1.84
3113297--3113350	20	2.7	19	88	5	72	22	16	24	37	1.94
3113358--3113533	21	8.5	21	68	13	71	32	18	21	27	1.96
3113440--3113491	20	2.5	21	87	3	70	21	23	17	38	1.93
3118789--3118884	23	4.2	23	91	0	138	42	20	9	27	1.83
3129121--3129328	43	4.8	45	79	8	150	27	17	6	48	1.72
3128993--3129246	131	2.0	129	82	7	318	25	17	7	48	1.74
3129219--3129319	42	2.4	43	85	6	134	26	19	7	45	1.78
3137698--3137774	33	2.4	31	85	6	109	33	9	11	45	1.72
3137962--3137993	16	2.0	17	88	11	50	43	21	21	12	1.86
3143863--3143948	31	2.8	30	81	11	95	52	3	2	41	1.31
3145146--3145207	29	2.1	29	84	3	79	40	9	6	43	1.63
3151912--3152241	55	6.0	54	79	9	217	31	24	16	27	1.96
3151912--3152243	110	3.0	108	81	8	291	31	25	15	27	1.96
3152252--3152327	35	2.1	37	85	9	104	19	18	19	42	1.90
3158867--3158906	21	1.9	21	89	0	62	25	40	25	10	1.86
3163374--3163434	24	2.5	24	84	10	70	6	18	1	73	1.12
3163391--3163501	15	6.8	17	73	22	80	6	17	0	75	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3163381--3163461	40	2.0	42	85	7	112	6	19	1	72	1.12
3163422--3163474	14	3.6	14	82	17	63	5	20	0	73	1.03
3163392--3163501	55	2.0	53	81	15	127	6	17	0	75	1.06
3163389--3163506	46	2.6	46	74	16	106	6	16	0	75	1.06
3163390--3163513	8	15.1	8	67	19	60	6	16	0	75	1.05
3163326--3163514	48	3.9	47	71	22	135	7	17	1	73	1.12
3173137--3173240	45	2.3	46	91	3	165	40	20	9	29	1.84
3185647--3185700	28	1.9	28	100	0	108	55	5	11	27	1.57
3202049--3202102	28	1.9	28	100	0	108	25	7	16	50	1.71
3202649--3202726	31	2.5	30	85	2	93	39	12	11	35	1.80
3203816--3203880	31	2.1	31	94	0	112	40	10	12	36	1.78
3207947--3208017	29	2.4	29	100	0	142	35	11	7	46	1.67
3213247--3213286	20	2.0	20	95	0	71	37	17	30	15	1.90
3213884--3213969	38	2.3	38	97	0	163	17	13	22	46	1.83
3215639--3215674	18	1.9	19	88	5	56	38	0	0	61	0.96
3215734--3215798	27	2.3	28	79	15	71	61	0	1	36	1.05
3217154--3217204	3	17.7	3	88	11	72	68	0	0	31	0.90
3223596--3223625	15	1.9	16	93	6	53	26	10	20	43	1.83
3234978--3235064	18	4.7	18	76	5	84	29	29	18	21	1.97
3236957--3236999	23	1.9	22	86	13	61	39	16	6	37	1.75
3238329--3238490	83	2.0	83	94	0	288	34	6	7	51	1.55
3241137--3241167	6	5.0	6	96	4	53	0	32	3	64	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3241946--3241994	22	2.2	22	85	0	62	63	6	0	30	1.19
3249846--3249929	31	2.7	32	83	3	98	17	2	11	67	1.32
3252023--3252116	44	2.1	44	98	2	179	42	15	12	28	1.84
3253460--3253508	25	2.0	24	84	4	62	38	2	0	59	1.09
3254420--3254772	175	2.0	175	92	3	595	46	8	3	41	1.53
3262062--3262110	24	2.0	25	84	4	64	48	2	10	38	1.48
3267336--3267386	16	3.1	16	77	8	50	49	0	1	49	1.12
3267396--3267441	22	2.0	21	84	12	56	39	4	0	56	1.19
3267369--3267439	29	2.3	30	81	11	83	42	1	1	54	1.17
3267367--3267448	31	2.7	31	78	19	84	41	2	1	54	1.21
3267487--3267578	42	2.3	41	81	9	102	44	3	1	51	1.25
3267605--3267658	26	2.0	26	82	13	65	53	1	0	44	1.11
3267659--3267698	20	2.1	19	95	4	71	45	0	0	55	0.99
3268335--3268370	2	18.0	2	100	0	72	50	0	0	50	1.00
3268580--3268624	18	2.5	19	82	13	60	17	8	11	62	1.53
3284231--3284307	38	2.0	38	97	0	145	38	5	20	35	1.75
3293934--3293984	12	3.8	13	77	12	50	56	17	1	23	1.51
3293934--3293968	12	2.8	13	86	4	54	57	22	0	20	1.41
3293934--3293983	25	1.9	27	88	8	77	58	18	2	22	1.49
3294745--3294810	29	2.2	29	80	15	73	57	6	3	33	1.38
3296486--3296526	8	4.8	9	79	8	50	14	21	0	63	1.30
3296697--3296820	56	2.2	57	86	7	180	37	12	22	27	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3300703--3300749	19	2.5	19	100	0	94	38	12	17	31	1.87
3300973--3301276	153	2.0	152	99	0	574	30	16	18	34	1.93
3312847--3312944	20	4.7	20	93	5	151	29	20	23	26	1.99
3312831--3312944	40	2.7	42	88	9	155	29	19	24	26	1.98
3317048--3317097	23	2.2	23	100	0	100	24	12	36	28	1.91
3317984--3318020	16	2.2	17	90	4	58	56	0	2	40	1.13
3318076--3318123	22	2.4	19	79	10	51	25	6	6	62	1.42
3318632--3318700	2	34.5	2	94	0	120	50	0	2	46	1.16
3320213--3320251	12	3.2	12	85	3	51	53	0	20	25	1.45
3320577--3320613	15	2.6	14	91	4	56	27	0	0	72	0.84
3330599--3330643	18	2.5	18	96	0	81	26	22	24	26	2.00
3336569--3336620	18	3.0	18	88	5	72	34	5	30	28	1.81
3337156--3337218	28	2.3	28	94	2	110	42	33	9	14	1.78
3337384--3337472	38	2.3	38	90	3	144	41	39	10	8	1.70
3337183--3337687	259	2.0	255	91	2	814	38	26	11	23	1.89
3338483--3338574	11	8.2	11	68	13	62	29	2	3	65	1.20
3338483--3338574	22	4.1	22	73	14	71	29	2	3	65	1.20
3338518--3338576	23	2.4	24	78	16	68	30	1	3	64	1.20
3339449--3339490	2	21.0	2	100	0	84	50	0	0	50	1.00
3345210--3345242	14	2.4	14	100	0	66	60	24	6	9	1.49
3348406--3348462	22	2.6	22	82	0	69	35	15	10	38	1.82
3349138--3349364	76	3.0	76	94	0	391	25	18	20	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3349463--3349642	93	1.9	93	95	0	324	34	17	16	31	1.92
3349390--3349765	206	1.8	208	92	2	650	38	14	19	27	1.91
3349553--3349812	113	2.3	112	85	5	353	36	15	18	28	1.92
3349858--3349902	23	2.0	22	83	12	56	48	6	26	17	1.72
3350203--3350263	3	20.0	3	80	9	61	39	1	0	59	1.08
3350228--3350263	19	1.9	18	88	5	54	33	2	0	63	1.08
3351529--3351624	23	4.2	22	70	15	70	28	3	4	64	1.27
3355229--3355301	30	2.4	30	88	0	110	30	21	20	27	1.98
3356051--3356107	22	2.8	20	77	15	62	29	22	17	29	1.97
3357740--3357812	36	2.0	36	100	0	146	41	5	21	31	1.76

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