genome.fa.s8280.2.7.7.80.10.50.1000.15.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: VEPZ01008280.1 Hibiscus syriacus cultivar Beakdansim tig00110940_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3557051

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   

This is table  15  of  17  ( 1944 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)
3106910--3106972	15	4.2	15	87	0	90	30	31	20	17	1.96
3106910--3106972	30	2.1	30	93	0	108	30	31	20	17	1.96
3107057--3107134	29	2.7	29	98	2	149	17	21	15	44	1.86
3107146--3107191	12	3.8	12	91	0	56	39	26	6	28	1.81
3107146--3107192	24	2.0	24	87	8	69	38	25	6	29	1.81
3107159--3107192	12	2.8	12	95	0	59	41	26	2	29	1.70
3107541--3107661	64	1.9	64	87	0	179	25	20	19	33	1.97
3108580--3108609	10	3.0	10	100	0	60	30	0	0	70	0.88
3124548--3124577	6	5.2	6	92	8	53	0	16	53	30	1.44
3124603--3124670	9	7.6	9	73	17	52	39	0	0	60	0.97
3124617--3124681	25	2.5	25	76	14	69	38	0	0	61	0.96
3124607--3124691	34	2.5	34	96	0	152	41	0	0	58	0.98
3125618--3125642	13	1.9	13	100	0	50	40	0	0	60	0.97
3127118--3127167	19	2.7	19	78	12	59	72	2	2	24	1.06
3127118--3127164	18	2.6	18	80	10	51	72	2	2	23	1.06
3127345--3127383	20	2.0	20	85	10	53	79	0	2	17	0.84
3128516--3128550	17	2.1	16	89	5	52	80	0	5	14	0.89
3128634--3129015	38	10.5	37	78	12	296	45	8	4	42	1.53
3129648--3130476	84	10.0	84	78	7	735	25	19	24	31	1.98
3129648--3130463	168	4.9	168	82	3	884	25	19	24	31	1.98
3129659--3130462	331	2.4	332	81	4	951	25	19	24	30	1.98
3131597--3131857	95	2.7	94	85	4	337	30	18	18	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3134448--3134528	22	3.5	22	73	10	56	72	3	3	19	1.15
3134473--3134528	21	2.8	20	77	17	62	71	3	1	23	1.11
3134732--3134763	3	10.7	3	100	0	64	68	0	0	31	0.90
3135236--3135318	33	2.5	32	85	12	107	46	4	1	46	1.31
3135237--3135698	39	12.6	37	77	15	249	45	7	3	43	1.49
3135341--3135698	39	9.4	38	80	9	315	44	8	4	43	1.53
3135361--3135851	39	13.2	36	75	12	193	43	8	4	42	1.57
3139837--3139972	63	2.2	63	80	7	143	36	19	18	26	1.94
3140666--3140787	32	3.8	31	77	7	111	31	14	18	34	1.92
3144290--3144353	20	3.2	20	82	4	76	34	28	20	17	1.95
3147835--3147877	4	10.8	4	94	0	77	72	0	27	0	0.85
3151676--3151856	90	2.0	90	97	0	344	21	31	27	19	1.97
3155355--3155395	20	2.0	20	100	0	82	29	9	26	34	1.88
3156733--3156825	40	2.3	40	87	3	134	24	39	18	17	1.91
3157788--3157812	2	12.5	2	100	0	50	48	0	0	52	1.00
3170920--3170958	20	2.0	20	89	0	60	30	33	15	20	1.94
3176896--3176977	23	3.6	23	73	17	82	21	26	23	28	1.99
3179269--3179301	16	2.1	16	100	0	66	42	0	21	36	1.53
3179272--3179327	16	3.0	19	82	12	55	39	0	32	28	1.57
3179662--3179700	20	2.0	20	89	0	60	30	33	15	20	1.94
3179720--3179809	45	2.0	46	88	2	137	28	25	17	27	1.98
3191327--3191392	21	3.0	23	62	20	59	22	24	22	30	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3191278--3191733	43	10.6	43	88	2	594	18	23	24	34	1.96
3191265--3191733	214	2.2	216	86	2	658	18	23	23	34	1.96
3192595--3192740	70	2.1	70	97	0	274	41	15	15	27	1.87
3194726--3195024	149	2.0	149	100	0	598	36	6	16	40	1.74
3201636--3201679	20	2.1	21	91	4	72	38	9	0	52	1.33
3204097--3204211	57	2.0	58	98	1	223	34	15	5	44	1.69
3204296--3204352	21	2.7	21	88	0	87	42	7	12	38	1.70
3204997--3205038	22	2.0	22	85	4	59	38	0	14	47	1.44
3205903--3205993	46	2.0	46	88	0	137	21	13	23	41	1.88
3206443--3206470	2	14.0	2	100	0	56	50	0	0	50	1.00
3208649--3208704	24	2.3	24	96	0	103	30	17	14	37	1.90
3209280--3209336	25	2.3	26	80	19	70	61	3	1	33	1.23
3209433--3209494	22	2.9	21	76	7	52	32	3	1	62	1.20
3213365--3213393	14	2.0	15	93	6	51	34	6	34	24	1.82
3213304--3213451	74	2.0	74	100	0	296	43	6	21	28	1.78
3221017--3221073	22	2.7	22	79	12	59	50	0	0	49	1.00
3221008--3221075	26	2.6	25	75	17	66	51	0	0	48	1.00
3221044--3221081	19	2.0	19	89	0	58	52	0	0	47	1.00
3221357--3221396	21	1.9	21	84	0	53	67	5	5	22	1.30
3229147--3229511	183	2.0	183	100	0	730	37	19	15	26	1.92
3230574--3230617	20	2.2	20	88	4	63	54	4	4	36	1.41
3230976--3231010	9	3.9	9	100	0	70	45	31	0	22	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3231012--3231055	22	2.0	22	90	0	70	59	34	0	6	1.24
3235166--3235199	17	2.0	17	100	0	68	23	41	0	35	1.55
3237456--3237495	21	1.9	21	89	0	62	10	25	40	25	1.86
3245545--3245638	40	2.3	40	94	5	163	25	24	13	36	1.93
3248390--3248428	19	2.0	20	90	5	62	53	2	5	38	1.37
3250258--3250296	21	1.9	21	84	5	53	53	2	2	41	1.28
3255146--3255258	29	4.0	28	96	3	208	14	35	29	21	1.92
3255146--3255258	57	2.0	57	96	3	210	14	35	29	21	1.92
3255409--3255491	20	4.3	20	93	4	136	10	32	31	25	1.90
3255418--3255490	19	3.9	18	94	3	119	10	32	30	26	1.90
3255409--3255490	39	2.1	37	91	6	128	10	32	30	25	1.90
3255409--3255507	10	9.9	10	71	26	77	11	31	32	25	1.90
3258709--3258804	48	2.0	48	100	0	192	35	6	29	29	1.82
3269326--3269361	12	2.9	12	91	4	54	19	52	16	11	1.73
3269381--3269412	2	16.5	2	93	6	57	50	0	0	50	1.00
3269492--3269526	12	2.9	12	95	0	61	28	51	11	8	1.67
3280477--3280552	18	3.8	18	71	24	62	30	32	18	18	1.95
3286096--3286137	20	2.0	21	90	4	68	23	33	21	21	1.97
3286865--3286920	24	2.3	24	100	0	112	33	21	26	17	1.96
3287013--3287076	31	2.1	31	91	2	103	32	21	4	40	1.74
3292928--3293088	29	5.7	29	77	5	150	41	24	5	28	1.77
3293096--3293125	13	2.3	13	94	0	51	13	23	43	20	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3293104--3293142	18	2.2	17	95	4	69	10	23	48	17	1.78
3293122--3293147	12	2.2	12	100	0	52	15	23	46	15	1.83
3299925--3299955	10	2.9	11	90	9	55	0	0	9	90	0.46
3305843--3306233	214	1.8	214	94	0	692	34	14	18	32	1.91
3306257--3306281	13	1.9	13	100	0	50	32	24	20	24	1.98
3306269--3306332	20	3.1	20	68	16	58	26	21	21	29	1.99
3306269--3306351	42	2.0	42	95	0	148	27	20	20	31	1.97
3306398--3306484	42	2.1	41	85	8	115	24	16	25	34	1.95
3306856--3307058	53	3.8	53	88	1	273	29	19	26	24	1.98
3313870--3314036	29	5.7	29	72	4	100	41	22	4	31	1.74
3314863--3315025	64	2.5	65	86	7	206	30	23	19	25	1.98
3318836--3318870	15	2.3	15	95	0	61	62	8	22	5	1.45
3323020--3323046	2	13.5	2	100	0	54	48	0	0	51	1.00
3323510--3323719	65	3.3	63	83	9	228	30	24	19	26	1.98
3323691--3323739	19	2.6	19	84	9	57	24	28	20	26	1.99
3326246--3326293	21	2.3	21	100	0	96	56	0	8	35	1.30
3326465--3326547	19	4.2	20	89	3	98	24	32	18	25	1.97
3326501--3326562	11	6.2	11	71	21	64	22	32	16	29	1.95
3326477--3326556	19	4.2	19	90	1	115	22	33	16	27	1.95
3327424--3327487	31	2.1	31	85	2	85	32	18	7	40	1.80
3327589--3327630	17	2.5	17	96	0	75	33	23	14	28	1.94
3337044--3337074	16	1.9	16	100	0	62	45	25	16	12	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3337893--3337930	12	2.8	13	88	11	51	36	7	0	55	1.29
3338190--3338250	23	2.7	23	87	5	79	29	27	22	19	1.98
3343116--3343156	18	2.4	17	83	4	55	36	9	0	53	1.34
3343126--3343171	21	2.1	21	88	11	67	36	6	0	56	1.25
3343291--3343318	2	14.0	2	100	0	56	50	0	0	50	1.00
3343427--3343481	23	2.4	23	84	3	58	27	27	25	20	1.99
3343441--3343484	23	1.9	23	100	0	88	27	27	22	22	1.99
3349114--3349220	7	15.9	7	72	11	80	43	37	0	18	1.50
3349421--3349461	14	3.1	14	76	20	52	41	0	4	53	1.22
3349421--3349468	25	1.9	25	86	0	69	43	0	4	52	1.20

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17