genome.fa.s8082.2.7.7.80.10.50.1000.16.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: VEPZ01008082.1 Hibiscus syriacus cultivar Beakdansim tig00110584_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6025995

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   

This is table  16  of  28  ( 3312 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)
2973294--2973387	16	5.8	16	71	12	66	36	0	2	61	1.08
2973510--2973563	17	3.2	17	72	0	54	31	0	3	64	1.11
2975085--2975132	21	2.3	21	85	0	60	25	39	12	22	1.89
2975136--2975226	21	4.3	20	89	6	110	20	35	25	18	1.96
2975751--2975846	33	2.9	34	85	6	133	55	4	3	37	1.35
2976238--2976995	128	5.9	128	98	0	1455	32	19	25	22	1.97
2976238--2976995	255	3.0	256	98	0	1455	32	19	25	22	1.97
2976238--2976995	383	2.0	384	98	0	1455	32	19	25	22	1.97
2977063--2977103	8	5.2	8	88	5	66	36	26	0	36	1.57
2977063--2977103	15	2.6	16	84	7	57	36	26	0	36	1.57
2980098--2980134	12	3.0	12	88	4	56	45	0	0	54	1.00
2986141--2986180	14	3.1	13	82	10	55	60	0	0	40	0.97
2987685--2987756	3	23.7	3	88	2	108	61	0	2	36	1.11
2988073--2988633	116	4.9	116	90	3	812	29	20	12	36	1.90
2989304--2989774	83	5.7	83	93	2	761	35	20	14	29	1.92
2989300--2989774	165	2.9	166	91	1	769	35	20	14	29	1.92
2989300--2989773	248	1.9	248	94	0	833	35	20	14	29	1.92
3001535--3001579	18	2.6	16	80	13	54	71	2	0	26	0.98
3002231--3002270	14	3.1	13	82	10	55	60	0	0	40	0.97
3003757--3003831	3	24.7	3	89	2	114	61	0	2	36	1.10
3025401--3025463	17	3.5	17	72	23	58	68	0	3	28	1.05
3025401--3025463	18	3.5	18	75	14	58	68	0	3	28	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3033634--3033661	6	4.7	6	100	0	56	17	50	17	14	1.79
3040156--3040197	20	2.1	20	100	0	84	23	19	35	21	1.96
3041159--3041268	33	3.3	32	77	8	96	70	0	5	23	1.14
3041159--3041253	31	3.0	31	80	11	79	71	1	3	24	1.07
3042922--3042999	24	3.2	25	75	10	65	44	16	17	20	1.86
3047644--3047720	24	3.2	23	75	10	75	46	18	15	19	1.84
3051440--3051504	28	2.3	28	94	0	112	33	16	24	24	1.96
3051646--3051779	66	2.0	66	85	0	178	58	11	11	19	1.62
3059672--3059721	20	2.5	20	90	0	82	60	2	8	30	1.37
3066471--3066503	16	2.1	16	88	11	50	30	0	69	0	0.88
3069225--3069268	18	2.5	17	82	10	52	18	2	4	75	1.09
3076801--3076941	42	3.3	42	82	4	149	34	19	12	33	1.89
3080072--3080096	2	12.5	2	100	0	50	48	0	0	52	1.00
3089236--3089274	12	3.5	11	83	10	53	23	25	33	17	1.96
3089347--3089393	22	2.0	23	88	8	69	23	27	34	14	1.94
3092990--3093030	17	2.4	17	95	0	73	19	21	14	43	1.87
3094985--3095057	17	4.0	17	73	16	65	35	12	10	41	1.78
3094975--3095057	39	2.1	41	84	4	107	33	13	12	40	1.81
3095678--3095728	12	4.2	12	75	9	50	49	0	0	50	1.00
3095657--3095714	23	2.4	23	82	5	71	50	1	0	48	1.11
3095668--3095723	23	2.3	23	81	6	58	50	1	0	48	1.11
3095726--3095783	23	2.3	25	85	11	75	46	8	1	43	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3095993--3096059	29	2.2	33	81	10	79	41	2	4	50	1.37
3096105--3096146	23	1.9	21	90	9	66	50	0	2	47	1.14
3096233--3096267	13	2.7	13	90	0	52	54	8	0	37	1.31
3096280--3096315	14	2.6	14	86	13	56	47	13	5	33	1.67
3096826--3096882	24	2.4	24	81	0	69	10	21	43	24	1.83
3099624--3099654	2	15.5	2	100	0	62	48	0	51	0	1.00
3105103--3105226	64	1.9	64	93	0	212	29	33	10	26	1.90
3110400--3110460	3	20.3	3	100	0	122	67	0	0	32	0.91
3113402--3113454	21	2.4	22	81	15	65	54	0	9	35	1.33
3114946--3115003	24	2.5	24	80	2	73	34	22	20	22	1.97
3115001--3115089	23	3.9	23	82	2	108	29	24	24	21	1.99
3115195--3115264	15	4.7	15	80	0	77	42	20	4	32	1.71
3128225--3128266	17	2.5	17	77	11	50	59	0	11	28	1.33
3128848--3128907	29	2.1	28	87	9	86	73	3	10	13	1.21
3136408--3136572	64	2.6	64	92	0	258	36	20	11	31	1.88
3136598--3136670	21	3.5	22	69	16	66	34	20	17	27	1.95
3136588--3136673	40	2.2	40	89	4	129	34	20	17	26	1.95
3136696--3137129	124	3.5	124	81	1	503	34	21	15	28	1.94
3141377--3141464	45	1.9	46	90	2	142	29	18	25	27	1.98
3142617--3142660	21	2.1	21	82	0	52	31	13	43	11	1.80
3148120--3148159	21	1.9	21	85	10	55	35	10	2	52	1.48
3150152--3150239	45	1.9	46	86	2	124	29	19	22	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3153368--3153429	2	31.0	2	100	0	124	50	0	0	50	1.00
3156664--3156699	6	5.8	6	96	3	63	33	0	0	66	0.92
3158292--3158654	131	2.8	130	88	0	501	38	15	12	32	1.85
3162172--3162229	27	2.1	28	84	9	75	55	0	1	43	1.10
3162275--3162307	2	16.5	2	100	0	66	51	0	0	48	1.00
3164177--3164210	18	1.9	18	88	5	52	38	11	2	47	1.55
3170937--3171101	65	2.6	65	85	6	203	29	18	23	29	1.97
3170937--3171142	65	3.2	65	81	6	170	29	17	23	30	1.97
3173142--3173174	13	2.4	14	90	5	50	51	3	12	33	1.54
3173189--3173236	20	2.4	21	76	16	57	64	18	0	16	1.29
3179157--3179321	65	2.5	64	77	12	167	31	16	21	29	1.96
3183439--3183471	17	1.9	17	100	0	66	30	24	15	30	1.95
3184102--3184166	31	2.1	31	85	5	87	61	10	0	27	1.29
3197663--3197734	36	2.0	36	97	0	135	37	18	11	33	1.86
3202818--3202853	16	2.3	16	90	4	56	44	2	0	52	1.15
3202983--3203007	13	1.9	13	100	0	50	36	0	0	64	0.94
3207407--3207446	3	13.3	3	94	0	71	35	2	0	62	1.09
3208037--3208095	21	2.7	22	79	12	68	54	0	0	45	0.99
3208116--3208151	18	2.1	17	89	5	54	58	0	2	38	1.13
3208061--3208172	25	4.3	25	70	18	68	50	0	0	48	1.13
3208617--3208693	30	2.6	29	85	4	109	32	15	7	44	1.75
3208617--3208687	15	4.8	15	76	8	74	30	15	7	46	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3216626--3216671	20	2.3	20	92	0	74	41	19	10	28	1.85
3222056--3222161	39	2.7	39	83	2	133	34	23	24	16	1.95
3222925--3222952	14	2.0	14	100	0	56	35	21	21	21	1.96
3229876--3229947	17	4.2	17	96	0	126	19	44	23	12	1.85
3230021--3230087	29	2.3	29	81	2	80	28	4	22	44	1.72
3230834--3230866	15	2.2	15	89	10	50	21	18	12	48	1.80
3231321--3231354	18	1.9	18	88	5	52	20	0	14	64	1.28
3234637--3234676	20	2.0	20	100	0	80	25	25	15	35	1.94
3237108--3237161	22	2.5	22	93	0	90	20	44	22	12	1.85
3237198--3237293	28	3.4	28	83	2	102	28	6	22	42	1.78
3238041--3238073	15	2.2	15	89	10	50	21	15	12	51	1.75
3238529--3238562	18	1.9	18	88	5	52	20	0	14	64	1.28
3239775--3239938	31	5.3	31	80	4	179	34	28	23	13	1.93
3241691--3241745	20	2.8	20	83	10	76	32	27	25	14	1.95
3241731--3241779	17	2.9	16	80	14	55	28	32	22	16	1.95
3255441--3255594	29	5.4	29	77	2	141	37	22	5	34	1.79
3255441--3255576	57	2.4	58	82	1	175	34	23	5	36	1.79
3261292--3261426	29	4.8	27	80	6	153	34	24	5	35	1.80
3261292--3261440	58	2.6	58	82	6	180	34	24	6	34	1.80
3261290--3261446	29	5.6	27	74	14	122	37	22	5	33	1.78
3269111--3269183	36	2.0	36	97	0	137	28	13	19	38	1.90
3269177--3269464	54	5.3	54	81	5	240	31	19	17	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3269343--3269499	54	2.9	54	89	1	217	32	19	19	29	1.96
3269696--3269760	29	2.2	29	88	0	94	46	7	21	24	1.77
3269978--3270196	45	4.8	45	90	0	330	46	7	18	27	1.75
3270084--3270156	19	3.2	23	67	30	66	49	4	15	31	1.63
3269979--3270231	45	5.6	45	88	2	253	45	7	18	28	1.76
3273268--3273295	14	2.0	14	100	0	56	78	0	0	21	0.75
3274094--3274190	47	2.1	47	100	0	194	26	18	10	44	1.82
3279189--3279229	16	2.6	16	88	3	57	36	12	21	29	1.90
3279306--3279368	23	2.7	23	97	0	117	23	19	19	38	1.93
3279408--3279461	22	2.5	22	93	0	90	24	22	25	27	2.00

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